Search by gene name, UCSC, RefSeq, Ensembl ID, or lncRNA type
| Name | HumanAlt | MouseAlt | Type | Transcript-Transcript Identity | Trascript-Genome Identity | Indel Rate | Conserved Splice Sites | Total Splice Sites | Mouse Exons Aligned | Human Exons Aligned |
|---|---|---|---|---|---|---|---|---|---|---|
| CUFF.77623 | CUFF.77623, | uc009dkv.1,AK135471, | intergenic | 0.23 | 0.20 | - | 1.0 | 1 | 3, | 1, |
| LINC00673 | ENST00000457958.2,ENST00000453722.2,ENSG00000227036,NR_036488,uc002jiz.2,LINC00673, | ENSMUST00000136438,ENSMUSG00000087259.1_DUP1,ENSMUST00000150712,uc007mei.2,ENSMUST00000145206,NR_015556,2610035D17Rik,ENSMUST00000127263, | intergenic | 0.07 | 0.34 | 0.10 | 1.0 | 2 | 2,3, | 3,6, |
| ENST00000441029.2 | ENSG00000229188,ENST00000441029.2, | uc008njn.1,AK145231, | divergent | 0.07 | 0.46 | - | 0.0 | 0 | 1, | 2, |
| NR_046685 | ENSG00000232132,ENST00000457171.1,NR_046685, | Locus_41363, | divergent | 0.02 | 0.09 | -0.82 | 0.5 | 2 | 1, | 1, |
| ENST00000441473.1 | ENSG00000232413,ENST00000441473.1, | AK048710,ENSMUSG00000087461.1,uc008jig.1,ENSMUST00000134921, | intergenic | 0.03 | 0.10 | -2.21 | 1.0 | 1 | 2, | 2, |
| AY660578 | uc004cui.1,ENST00000608176.1,ENST00000433747.2,ENST00000608576.1,ENST00000608916.1,AY660578,ENSG00000234129, | ENSMUST00000149873,AK051847,ENSMUST00000156210,ENSMUSG00000087159.1_DUP1,uc009uxy.1, | divergent | 0.09 | 0.41 | -0.09 | 0.0 | 5 | 1, | 1, |
| MIR155HG | MIR155HG,ENST00000456917.1,ENSG00000234883,uc002ylm.4,NR_001458, | ENSMUSG00000091875,ENSMUST00000164314,uc007ztd.1,AY096003, | exonic miRNA host | 0.59 | 0.69 | 0.15 | 0.5 | 1 | 2, | 4, |
| ENST00000458326.1 | ENSG00000237524,ENST00000568484.1,ENST00000436605.1,ENST00000454927.2,ENST00000450035.1,ENST00000441412.1,ENST00000458326.1,ENST00000437793.1, | Locus_2995, | intergenic | 0.10 | 0.33 | -0.66 | 3.5 | 7 | 3,4,5,6,7,8, | 3,4,5,6,7,8, |
| ENSG00000245208 | ENSG00000245208, | Locus_59190, | divergent | 0.18 | 0.69 | -1.16 | 0.5 | 2 | 1, | 1, |
| SNHG8 | NR_003584,uc003iby.3,ENST00000602483.1,NR_034010,NR_034011,ENST00000602573.1,ENST00000602520.1,ENST00000602414.1,ENST00000602819.1,ENSG00000246493,SNHG8, | NR_028574,Snora24,uc012cxc.1,uc008rfm.1, | snoRNA host | 0.51 | 0.64 | 0.57 | 2.0 | 2 | 1,2,3, | 1,2,3, |
| FZD10-AS1 | uc001uig.2,NR_033834,ENSG00000250208,FZD10-AS1,ENST00000505807.2,ENST00000509760.1, | NR_015517,ENSMUST00000134673,gene.v2.1_1007.0_chr5_2.480.ADD,ENSMUST00000091324,ENSMUST00000154305,uc008zsg.1,5930412G12Rik, | divergent | 0.35 | 0.60 | 0.00 | 0.0 | 2 | 1,2, | 1,7, |
| HOTTIP | ENST00000521028.2,HOTTIP,ENSG00000253769,uc022aau.1,NR_037843, | ENSMUST00000152875,ENSMUST00000141300,ENSMUSG00000055408,AK033508,uc009byt.1, | intergenic | 0.71 | 0.69 | -0.03 | 1.0 | 1 | 1,2, | 1,2, |
| ENST00000539266.2 | ENST00000539266.2,ENSG00000255740, | uc009enp.1,AK020962, | intergenic | 0.30 | 0.05 | -2.86 | 1.0 | 1 | 1,2, | 1,2, |
| ENST00000537269.1 | ENSG00000257084,ENST00000537269.1, | ENSMUSG00000087327.1,ENSMUST00000143765, | intronic miRNA host | 0.12 | 0.27 | -0.60 | 0.5 | 1 | 1, | 1, |
| LINC00684 | uc022byz.1,ENST00000373527.1,NR_034116,NR_120499,NR_120494,ENST00000373524.1,LINC00684,NR_120493, | NR_045422,AK006087,uc009tzg.1, | intergenic | 0.68 | 0.68 | -0.84 | 2.0 | 2 | 1,2,3, | 1,2,3, |
| ENST00000412069.1 | ENST00000458016.1,ENST00000412069.1,ENST00000417672.1, | ENSMUST00000137761,ENSMUST00000138501,AK015814,uc007qtp.1,ENSMUSG00000087320.1, | intergenic | 0.26 | 0.03 | - | 1.0 | 1 | 3,4, | 1,2, |
| ENST00000412431.2 | ENST00000261798.5,ENST00000412431.2,uc003lqw.1,ENST00000499521.2,ENST00000377843.2, | uc008fcg.1,AK019420,ENSMUST00000165123, | intergenic | 0.84 | 0.84 | - | 0.0 | 0 | 1, | 3, |
| BC090059 | BC090059,uc002wrm.1,ENST00000412571.1,ENST00000426012.1, | NR_033220,ENSMUSG00000087594.1,ENSMUST00000137180, | intergenic | 0.04 | 0.22 | -0.94 | 1.0 | 2 | 2, | 2, |
| LOC100506421 | ENST00000458253.1,ENST00000413121.1,uc002tck.2,NR_037883,LOC100506421,ENST00000443988.1,ENST00000447876.1,NR_131233,ENST00000454729.1,NR_131234,NR_131235, | uc007aut.1,NR_027826, | intergenic | 0.49 | 0.64 | -0.49 | 1.0 | 2 | 1,3, | 1,4, |
| MAGI2-AS3 | ENST00000442765.1,ENST00000424477.1,ENST00000426835.1,uc022agq.1,MAGI2-AS3,ENST00000446159.1,ENST00000451809.1,ENST00000414797.1,uc010lea.2,ENST00000422093.1,ENST00000448195.1,NR_038343,NR_038346,NR_038344,NR_038345, | ENSMUSG00000084779.2,uc008wnu.1,ENSMUST00000145207,AK046351, | divergent | 0.14 | 0.36 | 0.04 | 0.0 | 3 | 4, | 4,5, |
| ENST00000415611.3 | ENST00000415611.3, | AK002390,uc008wqt.1,NR_045040,NR_045042,ENSMUST00000152745,NR_045040_701, | snoRNA host | 0.28 | 0.57 | 0.12 | 2.0 | 3 | 2,3,4, | 2,3,4, |
| BC080555 | ENST00000422977.1,BC080555,uc001juj.3,NR_132103,NR_132104, | ENSMUST00000128848,1810062O18Rik,NR_033571,ENSMUSG00000084925.1_DUP2,uc007ska.1,ENSMUST00000129237,ENSMUST00000142099,ENSMUST00000141265, | divergent | 0.33 | 0.05 | - | 0.0 | 1 | 1, | 1, |
| NR_110457 | NR_110457,ENST00000426615.3, | uc008keh.1,ENSMUST00000143191,AK144266, | intergenic | 0.71 | 0.74 | 1.03 | 1.0 | 1 | 1,2, | 1,2, |
| LINC00035 | ENST00000427153.1,uc011kez.1,NR_026690,LINC00035, | ENSMUST00000136022,NR_026688_801,ENSMUST00000154060,2010001M06Rik,NR_026688,uc012eei.1, | intergenic | 0.60 | 0.62 | -2.14 | 2.5 | 3 | 1,2,3,4, | 1,2,3,4, |
| LOC286467 | ENST00000427391.1,uc004ewi.3,LOC286467,NR_026975, | ENSMUSG00000085396,NR_015505,uc009tdq.2,6720401G13Rik,NR_026976, | intergenic | 0.04 | 0.33 | -0.37 | 1.5 | 12 | 17,32, | 6,7, |
| TTC28-AS1 | ENST00000417381.1,TTC28-AS1,ENST00000428858.1, | AK039279,uc012ebe.1, | intergenic | 0.34 | 0.59 | - | 0.0 | 0 | 1, | 1, |
| XIST | XIST,NR_001564,uc004ebm.1,ENST00000429829.1, | Xist,NR_001570,ENSMUSG00000086503.1,uc009tzp.1,NR_001463,ENSMUST00000127786, | intergenic | 0.30 | 0.57 | 0.05 | 1.0 | 5 | 1,2,6,7, | 1,2,4,5,6, |
| AK095700 | uc001ubf.2,ENST00000545544.1,ENST00000541694.1,ENST00000429892.1,NR_002809,ENST00000542933.1,AK095700,ENST00000428029.2,ENST00000539299.1, | ENSMUST00000160321,ENSMUSG00000090086.1_DUP4,ENSMUST00000159637,ENSMUST00000160255, | intergenic | 0.85 | 0.74 | -1.26 | 4.0 | 5 | 1,2,3,4,5,6, | 1,2,3,4,5,6, |
| NR_110876 | ENST00000430908.2,ENST00000543512.1,NR_110876, | ENSMUST00000133231,ENSMUST00000124028,BC006965,uc007mdx.2,ENSMUSG00000041674.10_DUP3,NR_024085, | intergenic | 0.12 | 0.22 | -1.34 | 1.0 | 2 | 3, | 2, |
| AK056584 | AK056584,ENST00000431554.2,NR_125842,uc003pce.3, | NR_040378_1350,NR_040378,AK161639,uc009qti.1, | intergenic | 0.03 | 0.29 | - | 1.0 | 3 | 3, | 2, |
| BC025370 | NR_104174,ENST00000432701.2,uc001uzl.3,BC025370, | nod.naive_gene.v2.1_2722.0_chr14_gene.v2.1_1023.0_chr14, | intergenic | 0.05 | 0.51 | - | 1.0 | 1 | 2, | 1, |
| AK055260 | ENST00000564335.1,uc002obw.1,NR_104176,AK055260,ENST00000433059.1, | NR_036630,uc009gep.1,ENSMUST00000124276,ENSMUSG00000062132.9,Gm1082, | intergenic | 0.45 | 0.71 | -1.31 | 4.0 | 7 | 1,4,7,8,9,11,12, | 1,2,3,4,5,6,7,8, |
| ENST00000435287.1 | ENST00000435287.1, | uc007eqv.1,ENSMUST00000146208,AK014660,ENSMUST00000148709,ENSMUSG00000087400.1_DUP1,ENSMUST00000136908,ENSMUST00000125158,ENSMUST00000141076, | divergent | 0.28 | 0.45 | -0.53 | 0.5 | 1 | 1, | 1, |
| HP06981 | ENST00000565225.1,ENST00000436697.2,ENST00000567948.1,NM_001308421,NM_001308422,NM_001308423,HP06981,uc021smt.1, | NR_040377,uc009qqu.1,BC037369, | divergent | 0.47 | 0.23 | -1.50 | 0.0 | 1 | 2, | 2, |
| DANCR | ENST00000444958.1,DANCR, | uc008xti.1,ENSMUSG00000053656.5_DUP2,ENSMUST00000117249,ENSMUST00000120364,2700023E23Rik,ENSMUST00000066220,ENSMUST00000132389,NR_015531, | intronic miRNA host | 0.08 | 0.52 | -0.18 | 1.5 | 2 | 2, | 1, |
| AK093363 | NR_104145,ENST00000444985.2,AK093363,uc004bcy.1, | ENSMUST00000127709,ENSMUSG00000086371.1, | intergenic | 0.72 | 0.31 | - | 0.5 | 1 | 1, | 1, |
| ENST00000447728.1 | ENST00000447728.1, | ENSMUSG00000086363.1_DUP3,ENSMUST00000146336, | intergenic | 0.82 | 0.78 | -1.14 | 1.0 | 1 | 1,2, | 1,2, |
| BC051759 | NR_110260,ENST00000447809.2,BC051759,uc002udp.3, | NR_033495,ENSMUSG00000087301.1_DUP1,Gm13629,uc008jxc.1,ENSMUST00000152740,ENSMUST00000141149, | intergenic | 0.25 | 0.45 | - | 1.0 | 3 | 2, | 4, |
| GAS5 | ENST00000436656.1,ENST00000414075.1,ENST00000421068.1,ENST00000416952.1,ENST00000431268.1,ENST00000454813.1,ENST00000430245.1,ENST00000449289.1,NR_002578,ENST00000422207.1,ENST00000456812.2,ENST00000425771.1,ENST00000432536.1,ENST00000448718.1,ENST00000444470.1,ENST00000422183.1,ENST00000449589.1,ENST00000436285.1,ENST00000454068.1,ENST00000443799.1,uc001gjk.3,ENST00000452197.1,ENST00000434796.1,ENST00000451607.1,ENST00000450589.1,ENST00000412059.1,ENST00000456293.1,ENST00000422008.1,ENST00000442067.1,GAS5,ENST00000455838.1, | ENSMUSG00000053332.7_DUP23,ENSMUST00000161229,ENSMUST00000159153,ENSMUST00000159157,NR_002840,ENSMUST00000161461,ENSMUST00000159706,ENSMUST00000159663,ENSMUST00000160429,ENSMUST00000159438,uc007deu.1,ENSMUST00000065709,ENSMUST00000162289,ENSMUST00000159399,ENSMUST00000159037,ENSMUST00000159119,ENSMUST00000159890,ENSMUST00000160152,ENSMUST00000162163,ENSMUST00000161380,ENSMUST00000161005,ENSMUST00000160551,ENSMUST00000159404,ENSMUST00000162558,ENSMUST00000161623,Gas5,ENSMUST00000160516, | snoRNA host | 0.49 | 0.67 | 0.35 | 8.5 | 10 | 1,2,3,4,5,6,7,10,11,12, | 1,2,3,4,5,6,7,9,10,11, |
| ENST00000454034.1 | ENST00000454034.1, | ENSMUSG00000085463,ENSMUST00000130532, | intergenic | 0.80 | 0.76 | -0.11 | 1.0 | 1 | 1,2, | 1,2, |
| NR_046217 | ENST00000594152.1,NR_046217,ENST00000455406.1,uc001dfu.1, | uc008rvd.1,AK076987, | intergenic | 0.04 | 0.62 | 0.75 | 0.0 | 1 | 1, | 1, |
| PRKAG2-AS1 | NR_038926,PRKAG2-AS1,uc003wko.2,ENST00000467458.1, | ENSMUST00000171190,ENSMUST00000128569,uc008wsq.2,ENSMUSG00000043833.6_DUP1,2900005J15Rik,NR_027851, | divergent | 0.25 | 0.45 | - | 0.0 | 0 | 1, | 1,2, |
| BC038725 | ENST00000478772.1,ENST00000465283.1,NR_109987,BC038725,ENST00000471091.1,uc003ern.3,ENST00000469216.1, | CUFF.18686, | intergenic | 0.38 | 0.52 | 0.24 | 1.0 | 1 | 1,2, | 1,2, |
| HNRNPU-AS1 | NR_026778,ENST00000489705.1,HNRNPU-AS1,uc001iav.3,ENST00000475997.1,ENST00000366527.3, | uc011wxl.1,ENSMUST00000161769,Hnrnpu,uc007dvb.2,ENSMUST00000159117,NM_016805,ENSMUST00000037748, | intergenic | 0.09 | 0.37 | -0.37 | 2.0 | 4 | 10,11,14,16,17, | 1,2,3,4,5, |
| SNHG12 | NR_024127,ENST00000531126.1,uc001bqo.3,ENST00000488745.1,ENST00000474814.1,SNHG12,ENST00000461448.1,ENST00000475441.1,ENST00000481368.1,ENST00000461832.1,ENST00000470977.1,ENST00000464612.1,ENST00000483436.1,ENST00000464115.1,ENST00000481220.1, | ENSMUSG00000086290.1_DUP1,NR_029468,Snhg12,uc008vaz.1,ENSMUST00000153474,ENSMUST00000126380,ENSMUST00000128000,ENSMUST00000144705,ENSMUST00000128131, | snoRNA host | 0.25 | 0.61 | -0.15 | 2.0 | 3 | 1,2,3, | 2,3,4, |
| SNHG10 | SNHG10,NR_003138,ENST00000500370.2,ENST00000554169.1,NR_001459,uc001yel.3, | uc007oxt.2,NR_003145,Snhg10,rm1.naive_gene.v2.1_1012.0_chr12, | snoRNA host | 0.60 | 0.63 | 0.46 | 0.5 | 1 | 1,2, | 1,2, |
| DACT3-AS1 | DACT3-AS1,uc002pfc.1,ENST00000500689.1,NR_040041, | ENSMUST00000165658,nod.primed_gene.v2.1_2774.0_chr7, | divergent | 0.23 | 0.59 | -0.56 | 0.0 | 1 | 1, | 1, |
| SPTY2D1-AS1 | NR_038360,SPTY2D1-AS1,ENST00000501599.2,uc001mow.1, | ENSMUST00000070660,Gm9999,NR_033461,uc009gzv.2,NR_033461_1050, | intergenic | 0.50 | 0.23 | -3.56 | 2.0 | 4 | 2,4,5, | 1,3,4, |
| ENST00000524297.1 | ENST00000523648.1,ENST00000522646.1,ENST00000524297.1,ENST00000517508.1,ENST00000523704.1,ENST00000522686.1,ENST00000519570.1,ENST00000522303.1, | AK016100,uc007ilo.1, | intergenic | 0.04 | 0.04 | -1.65 | 1.0 | 2 | 2, | 5, |
| NR_027007 | ENST00000467069.2,ENST00000481221.2,ENST00000522221.1,NR_027007,ENST00000522525.1,ENST00000520447.1,ENST00000521267.1, | NR_027009,NR_027008,Gt(ROSA)26Sor,ENSMUST00000124246,uc009deo.2,ENSMUST00000159544,NR_027009_923, | intergenic | 0.62 | 0.61 | -0.16 | 0.5 | 1 | 1,2, | 1,3, |
| SNHG6 | SNHG6,ENST00000520348.1,ENST00000521127.1,ENST00000520619.1,ENST00000521399.1,ENST00000520944.1,NR_002599,uc003xxa.1, | NR_024067,Snhg6,uc007aha.1,NR_024067_24, | snoRNA host | 0.53 | 0.60 | -0.45 | 2.5 | 3 | 2,3,4, | 2,3,4, |
| LOC100130155 | NR_109792,ENST00000521441.1,LOC100130155,uc003xvd.3,ENST00000519741.1, | 2610100L16Rik,NR_033490_378,uc008orj.2,NR_033490, | intronic miRNA host | 0.69 | 0.70 | 0.00 | 1.0 | 2 | 1,2,3, | 1,2,3, |
| AK123947 | NR_024430,ENST00000529823.1,ENST00000524376.1,ENST00000528986.1,uc001pyd.1,AK123947,ENST00000531381.1, | 2610203C20Rik,ENSMUST00000098868,uc009pal.2,NR_015483, | intronic miRNA host | 0.65 | 0.69 | 0.54 | 1.0 | 1 | 1,2, | 1,2, |
| ENST00000527474.1 | ENST00000529733.1,ENST00000528381.1,ENST00000527474.1, | uc009pai.1,NR_040725_1304,NR_040725,AK014147, | intergenic | 0.10 | 0.07 | -0.13 | 1.0 | 3 | 2, | 3, |
| SNHG9 | ENST00000564014.1,NR_003142,uc002cnr.3,SNHG9,ENST00000531523.1, | NR_027900,ENSMUST00000161706,ENSMUSG00000090101.1,uc008axx.2,Snhg9, | snoRNA host | 0.66 | 0.71 | 0.32 | 0.5 | 1 | 1,2, | 1,2, |
| RMST | ENST00000538559.2,RMST,ENST00000548886.1, | uc007gtz.2,ENSMUSG00000086180.1_DUP1,NR_028262,Rmst,ENSMUST00000137229, | intronic miRNA host | 0.19 | 0.47 | -1.42 | 4.5 | 12 | 1,2,4,5,6,7, | 4,5,6,7,8,9, |
| DIO2-AS1 | ENST00000553979.1,DIO2-AS1,uc001xuw.1,NR_038355, | AK029834,ENSMUSG00000085138,uc007okg.1,ENSMUST00000145487, | divergent | 0.02 | 0.56 | - | 0.5 | 5 | 1, | 1, |
| NR_110178 | NR_110178,ENST00000554693.2, | Locus_71032, | snoRNA host | 0.22 | 0.66 | 0.22 | 1.0 | 2 | 2,3, | 9,10, |
| NR_037601 | NR_037602,NR_037600,NR_037601,ENST00000556895.1,ENST00000554133.1,ENST00000557682.2, | NR_037569,NR_037569_1070, | intergenic | 0.23 | 0.53 | -0.27 | 4.0 | 4 | 1,2,3,4,5, | 1,2,3,4,5, |
| BC039668 | BC039668,uc002xfk.3,ENST00000439595.1,ENST00000559804.1,NR_109939,ENST00000559455.1, | ENSMUST00000149275,ENSMUST00000134838,ENSMUST00000137463,ENSMUSG00000087179.1, | divergent | 0.49 | 0.61 | 0.41 | 0.0 | 1 | 1, | 1, |
| DQ574852 | DQ574852,uc003yvm.3,ENST00000560295.1, | DQ715667,uc007wbs.1, | intergenic | 0.81 | 0.81 | - | 0.0 | 0 | 1, | 1, |
| NR_120317 | NR_120317,ENST00000560778.2, | NR_045098_1086,NR_045098,ENSMUST00000124191, | intergenic | 0.64 | 0.04 | -0.40 | 1.5 | 2 | 2,3, | 2,3, |
| NR_110650 | NR_110650,ENST00000569726.1, | Locus_45503, | intergenic | 0.62 | 0.64 | -1.14 | 0.0 | 1 | 1, | 1, |
| ENST00000577382.1 | ENST00000577382.1, | Locus_3238, | intergenic | 0.65 | 0.67 | - | 0.0 | 1 | 1,2, | 2, |
| SNHG15 | SNHG15,ENST00000577700.1,uc003tmk.4, | ENSMUSG00000085156.1_DUP2,NR_045893,uc007hyu.1,ENSMUST00000147762,AK160548,ENSMUST00000134527, | snoRNA host | 0.66 | 0.65 | - | 0.0 | 1 | 1,2, | 1, |
| BZRAP1-AS1 | ENST00000580633.1,NR_038418,ENST00000580022.1,NR_038412,NR_038413,BZRAP1-AS1,NR_038411,NR_038416,NR_038417,NR_038414,NR_038415,ENST00000578025.1,ENST00000583826.1,uc021uan.1,ENST00000579527.1,ENST00000585236.1,ENST00000578334.1,NR_038410,ENST00000580515.1,ENST00000579859.1, | ENSMUST00000123700,ENSMUSG00000084796.1,uc007kul.1,AK020764, | intronic miRNA host | 0.00 | 0.51 | - | 0.0 | 1 | NA | NA |
| ENST00000580459.1 | ENST00000580459.1, | Locus_11993, | divergent | 0.31 | 0.54 | - | 0.0 | 0 | 1,2,3, | 1, |
| ENST00000580729.1 | ENST00000580729.1, | ENSMUSG00000086772.1,ENSMUST00000131925, | intergenic | 0.81 | 0.82 | - | 0.0 | 1 | 1,2, | 1, |
| LINC00675 | NR_036581,LINC00675,ENST00000581851.1,uc002gmz.3, | ENSMUSG00000085683.1_DUP1,ENSMUST00000127166,ENSMUST00000150220, | intergenic | 0.62 | 0.63 | -0.77 | 0.5 | 1 | 1,3, | 1,2, |
| SNHG16 | ENST00000493536.1,ENST00000448136.1,NR_038111,SNHG16,ENST00000586846.1,ENST00000591956.1,NR_038108,NR_038109,ENST00000587743.1,NR_038110,ENST00000586942.1,ENST00000587838.1,ENST00000590435.1,uc002jsd.2, | ENSMUST00000139934,NR_027821,NR_027820,ENSMUST00000131260,NR_027819,NR_027819_1766,ENSMUST00000134818,ENSMUST00000144049,uc007mlz.2,ENSMUST00000106378,ENSMUST00000142834,1810032O08Rik, | snoRNA host | 0.31 | 0.65 | -0.33 | 2.0 | 4 | 1,2,3,5, | 1,2,3,4, |
| LINC00649 | ENST00000400353.2,ENST00000595747.1,ENST00000427447.1,ENST00000598119.1,ENST00000596365.1,ENST00000594752.1,NR_038883,ENST00000597626.1,ENST00000593977.1,ENST00000600155.1,uc002ytn.3,ENST00000608129.1,ENST00000594370.1,LINC00649, | ENSMUST00000141344,ENSMUSG00000087190, | divergent | 0.08 | 0.56 | -1.32 | 0.0 | 2 | 1, | 1, |
| FTX | ENST00000603672.1,NR_028379,FTX,ENST00000430772.1,uc010nlq.1,ENST00000602420.1,ENST00000429124.1,ENST00000423992.2,ENST00000455395.1,ENST00000602776.1,ENST00000602576.1,ENST00000418855.1,ENST00000602812.1, | ENSMUSG00000086370.2_DUP3,ENSMUST00000156240,ENSMUST00000130063,NR_028381,NR_028380,B230206F22Rik,uc009tzt.2,ENSMUST00000156211,ENSMUST00000145803, | intronic miRNA host | 0.05 | 0.14 | -0.49 | 2.0 | 4 | 6,7, | 2,3, |
| COX10-AS1 | COX10-AS1,uc002goe.1,ENST00000449363.1,NR_049718,ENST00000602743.1,ENST00000602539.1,ENST00000577798.2,ENST00000582752.2, | 2810001G20Rik,ENSMUSG00000087497.1,ENSMUST00000146333,NR_033780,uc007jkq.2,ENSMUST00000135037, | divergent | 0.15 | 0.52 | 0.00 | 0.0 | 1 | 1, | 1, |
| ENST00000605849.1 | ENST00000605849.1, | ENSMUSG00000089737,ENSMUST00000161394, | divergent | 0.21 | 0.28 | - | 0.0 | 0 | 1, | 1, |
| LINC00340 | ENST00000606851.1,ENST00000607048.1,NR_015410,uc003ndj.3,LINC00340,ENST00000444265.2, | uc007pyi.1,NR_045053,BC025054,NR_045054,ENSMUST00000125358,ENSMUST00000134624,ENSMUSG00000085936.1_DUP2,ENSMUST00000148885, | intergenic | 0.57 | 0.08 | -1.31 | 1.5 | 3 | 1,2, | 1,2, |
| ENST00000608450.1 | ENST00000608450.1, | ENSMUST00000155498,ENSMUSG00000086839.1_DUP1,ENSMUST00000127488,ENSMUST00000124274, | divergent | 0.52 | 0.07 | - | 0.0 | 0 | 1, | 1, |
| NR_110652 | ENST00000608811.1,ENST00000436013.1,NR_110652, | ENSMUSG00000086426.1,ENSMUST00000139874, | divergent | 0.75 | 0.76 | -2.85 | 0.5 | 1 | 1,2, | 1,2, |
| NR_125801 | ENST00000608917.1,NR_125801, | ENSMUST00000127160,7530420F21Rik,ENSMUST00000126669,NR_015466_112,uc007cxu.2,NR_015466, | divergent | 0.23 | 0.01 | - | 0.0 | 0 | 1, | 1, |
| Locus_121174 | Locus_121174, | ENSMUSG00000044125.6,NR_045777,AK079280,ENSMUST00000137239,NR_045776,uc008tsz.1, | divergent | 0.18 | 0.36 | -0.18 | 0.0 | 1 | 1, | 1, |
| Locus_167057 | Locus_167057, | ENSMUST00000143755,ENSMUSG00000087110.1, | intronic miRNA host | 0.03 | 0.31 | -1.70 | 0.0 | 1 | 4, | 2, |
| Locus_193558 | Locus_193558, | ENSMUSG00000090199,ENSMUST00000161643, | divergent | 0.07 | 0.08 | -1.44 | 0.0 | 1 | 1, | 1, |
| NR_104232 | NR_002596_232,NR_104232, | uc009pun.2,1700041C23Rik,Locus_103819,NR_033784, | intergenic | 0.05 | 0.50 | -1.33 | 1.0 | 4 | 3,5, | 3,4, |
| LINC00643 | LINC00643,NR_015358_623, | uc007nwx.2,NR_030735,NR_030734,NR_030733,ENSMUST00000095617,NR_030735_1845,1700086L19Rik, | intergenic | 0.86 | 0.61 | -1.50 | 2.5 | 3 | 1,2,3,4, | 1,2,3,4, |
| NR_026594 | NR_026594,NR_026594_1253, | Gm5126,NR_026596_1463,uc012hnc.1,NR_026596, | intergenic | 0.70 | 0.70 | - | 0.0 | 0 | 1, | 1, |
| CCDC41-AS1 | CCDC41-AS1,NR_027035_1638, | uc007gvv.2,4932415G12Rik,ENSMUSG00000086635,NR_015524,ENSMUST00000151198, | divergent | 0.06 | 0.10 | - | 0.0 | 0 | 1, | 1, |
| UCKL1-AS1 | NR_027287_1827,UCKL1-AS1, | NR_027290,ENSMUST00000148004,Uckl1os,uc012cmr.1,ENSMUSG00000010492.10,ENSMUST00000122831,ENSMUST00000126672, | intergenic | 0.62 | 0.60 | - | 0.0 | 1 | 1,2, | 1,2, |
| MIR22HG | MIR22HG,NR_028502_2324, | 2210403K04Rik,uc007kdv.1,NR_030711,ENSMUST00000149940,ENSMUSG00000085148.1,ENSMUST00000124718,ENSMUST00000134345, | exonic miRNA host | 0.63 | 0.78 | -0.20 | 0.5 | 1 | 1,2, | 1,2, |
| EIF1B-AS1 | EIF1B-AS1,NR_033965_2904, | uc009sco.1,AK085969, | intergenic | 0.17 | 0.53 | 0.16 | 0.0 | 1 | 1, | 1, |
| FLJ31813 | FLJ31813,NR_038275_3793, | AK020619,uc009djr.1, | divergent | 0.28 | 0.57 | -0.16 | 0.0 | 3 | 1,2,4, | 1,3, |
| LOC100506207 | LOC100506207,NR_038979_4120, | ENSMUSG00000085605,ENSMUST00000139681, | divergent | 0.16 | 0.15 | -0.11 | 0.0 | 2 | 1, | 1, |
| LOC100288198 | NR_040671_4325,LOC100288198, | AK018214,uc009qwf.1, | intergenic | 0.72 | 0.70 | - | 0.0 | 1 | 1,2, | 2, |
| NR_046105 | NR_046105,NR_046105_4632, | uc008rde.1,AK076759, | exonic miRNA host | 0.18 | 0.60 | - | 0.5 | 2 | 1, | 3, |
| T002521 | T002521, | gene.v2.1_1003.0_chr4_1.837.ADD, | intergenic | 0.65 | 0.68 | - | 0.0 | 1 | 1,2, | 2, |
| T002540 | T002540, | ENSMUSG00000078492,ENSMUST00000128056,NR_040649, | divergent | 0.28 | 0.15 | -0.50 | 0.0 | 1 | 1,2, | 1, |
| T003458 | T003458, | AK018156,uc008vpy.1, | intergenic | 0.09 | 0.09 | - | 1.0 | 2 | 2, | 3, |
| T005649 | T005649, | ENSMUST00000166316,1700029M20Rik,NR_015613,ENSMUST00000153347,NR_027909,uc008vgs.2,ENSMUST00000148529,ENSMUSG00000086788.2_DUP1,ENSMUST00000134416, | intergenic | 0.65 | 0.65 | - | 0.0 | 1 | 1,2, | 2, |
| T006742 | T006742, | ENSMUST00000144212,ENSMUST00000138697,ENSMUSG00000087171.1_DUP1, | intronic miRNA host | 0.00 | 0.60 | - | 0.0 | 1 | NA | NA |
| T007179 | T007179, | ENSMUST00000139190,AK054442,ENSMUST00000129149,uc008uyk.1,ENSMUST00000145196,ENSMUST00000141731,ENSMUSG00000086369.1,NR_045190, | intergenic | 0.66 | 0.60 | - | 0.0 | 0 | 1,2,3, | 1, |
| T007481 | T007481, | ENSMUSG00000085085,uc008uvv.1,ENSMUST00000149472,AK019743, | divergent | 0.12 | 0.03 | - | 0.0 | 1 | 1, | 2, |
| T009216 | T009216, | ENSMUSG00000085626.1,ENSMUST00000144407, | intergenic | 0.64 | 0.61 | - | 0.0 | 0 | 1,2, | 1, |
| T012534 | T012534, | AK021368,NR_040708,ENSMUST00000144604,uc008tvl.1, | exonic miRNA host | 0.51 | 0.58 | 0.38 | 0.5 | 1 | 1,2, | 2,4, |
| T012867 | T012867, | uc009cev.1,AK087755,ENSMUST00000065878, | divergent | 0.35 | 0.47 | 0.06 | 0.0 | 1 | 1,2, | 1,2, |
| T013180 | T013180, | ENSMUSG00000085084.1_DUP1,ENSMUST00000140941,AK083124,uc008ruz.1,ENSMUST00000149387,NR_040400,NR_040398,NR_040399, | divergent | 0.28 | 0.63 | 0.53 | 0.0 | 1 | 1, | 1, |
| T014610 | T014610, | Locus_98573, | intergenic | 0.66 | 0.63 | - | 0.5 | 1 | 2, | 3, |
| BC036441 | ENST00000606660.1,BC036441,T014949,uc001dnt.1,ENST00000455680.1, | ENSMUST00000149128,gene.v2.1_1001.0_chr5_17.463.ADD,ENSMUST00000124394, | intergenic | 0.84 | 0.74 | -1.06 | 1.0 | 1 | 1,2, | 1,2, |
| T016323 | T016323, | AK017534,uc008rbi.1, | divergent | 0.42 | 0.42 | - | 0.0 | 0 | 1, | 1, |
| T018186 | T018186, | ENSMUSG00000053957.5,ENSMUST00000122898, | divergent | 0.07 | 0.05 | - | 0.0 | 0 | 1, | 1, |
| T018406 | T018406, | ENSMUSG00000085121.1,ENSMUST00000155540, | intergenic | 0.72 | 0.61 | -2.98 | 0.5 | 2 | 1,3, | 1,4, |
| T020631 | T020631, | ENSMUST00000098867,AK144859,uc008qji.1, | divergent | 0.27 | 0.09 | - | 0.0 | 0 | 1, | 1, |
| T024690 | T024690, | Locus_80770, | intergenic | 0.69 | 0.61 | - | 0.0 | 0 | 1,2, | 1, |
| ENST00000452366.1 | ENST00000452366.1,T025232, | Locus_82396, | intergenic | 0.62 | 0.66 | - | 0.0 | 1 | 1,2, | 1, |
| T026036 | T026036, | Locus_81386, | intergenic | 0.74 | 0.72 | - | 0.0 | 1 | 1,2, | 2, |
| T026046 | T026046, | Locus_82342, | intergenic | 0.65 | 0.50 | - | 0.0 | 1 | 1,2, | 1, |
| T028341 | T028341, | CUFF.135353, | intergenic | 0.62 | 0.62 | - | 0.0 | 1 | 1,2, | 2, |
| T028627 | T028627, | Locus_82399, | intergenic | 0.62 | 0.47 | - | 0.0 | 1 | 1,2, | 2, |
| NR_024337 | ENST00000437764.1,ENST00000480052.1,uc001hhx.3,ENST00000475406.1,NR_024337,T029798, | gene.v2.1_1001.0_chr1_5.29.ADD,AK145301,uc007edt.1,ENSMUST00000159407, | intergenic | 0.74 | 0.74 | -0.47 | 1.5 | 2 | 1,2,3,4, | 1,2,3, |
| T031781 | T031781, | ENSMUSG00000073485.3,ENSMUST00000097448, | divergent | 0.50 | 0.66 | - | 0.0 | 0 | 1, | 1,2, |
| T032132 | T032132, | AK162965,uc007jdh.1,NR_037964_1686,NR_037964, | divergent | 0.01 | 0.53 | 0.13 | 0.0 | 1 | 1, | 1, |
| T033939 | T033939, | CUFF.138981,uc007dtm.1,AK136128, | intergenic | 0.64 | 0.61 | - | 0.0 | 1 | 1,2, | 4, |
| T036865 | T036865, | NR_024257,4930412O13Rik,uc008ihh.2,NR_024257_192, | intergenic | 0.46 | 0.55 | 1.06 | 1.0 | 2 | 1,2,3,4,5, | 1,2,3, |
| NR_110370 | T037882,ENST00000563601.1,NR_110370, | NR_038162,AK014986,uc008ikf.1,ENSMUST00000152524,ENSMUSG00000086657, | divergent | 0.30 | 0.45 | - | 0.0 | 0 | 1, | 1, |
| T038073 | T038073, | NR_040632,NR_040632_157, | intronic miRNA host | 0.00 | 0.22 | - | 0.0 | 3 | NA | NA |
| NR_108038 | ENST00000437677.1,T041757,NR_108038, | Locus_40448, | divergent | 0.17 | 0.42 | -1.29 | 1.0 | 1 | 1,2, | 1,2, |
| T043556 | T043556, | Locus_66131, | intergenic | 0.66 | 0.68 | - | 0.0 | 1 | 1,2, | 3, |
| T044121 | T044121, | NR_029446_2047,NR_029446, | divergent | 0.54 | 0.54 | - | 0.0 | 0 | 1, | 2, |
| T044604 | T044604, | ENSMUST00000062438,ENSMUSG00000048628.4, | intergenic | 0.61 | 0.62 | - | 0.0 | 1 | 1,2, | 2, |
| T047347 | T047347, | ENSMUSG00000090930.1,ENSMUST00000166501, | intergenic | 0.69 | 0.65 | -0.33 | 1.0 | 1 | 1,2, | 1,2, |
| T049021 | T049021, | uc008iab.1,AK045643,NR_040316,rm1.primed_gene.v2.1_1827.0_chr19_gene.v2.1_1272.0_chr19,ENSMUST00000138723, | divergent | 0.51 | 0.60 | - | 0.0 | 1 | 1,2, | 1,2,3, |
| NR_026941 | T049321,NR_026941,ENST00000454781.1, | ENSMUSG00000091378,AK143957,uc008ibo.1,ENSMUST00000168140, | divergent | 0.05 | 0.64 | 0.52 | 0.5 | 1 | 1,2, | 1,2, |
| NR_108078 | NR_108078,ENST00000553459.1,NR_108079,T051680, | ENSMUST00000130771,AK144366,ENSMUSG00000085354.1,uc009kgh.1, | exonic miRNA host | 0.63 | 0.63 | -0.02 | 0.5 | 1 | 1,2, | 2,3, |
| NR_073431 | ENST00000525484.1,NR_073431,T054575, | DQ717888,uc009jee.1, | divergent | 0.35 | 0.59 | - | 0.0 | 0 | 1, | 1,2, |
| T055118 | T055118, | AK035124,uc009jht.1, | intergenic | 0.64 | 0.61 | - | 0.0 | 1 | 1,2,3,4, | 1, |
| T055817 | T055817, | AK158295,ENSMUST00000129551,ENSMUST00000147173,uc009hbb.1,ENSMUSG00000085995.1_DUP1, | divergent | 0.11 | 0.68 | 0.29 | 0.5 | 1 | 1, | 1, |
| T056455 | T056455, | ENSMUSG00000086758.1,ENSMUST00000156541, | intronic miRNA host | 0.12 | 0.01 | -3.94 | 0.0 | 2 | 3, | 1, |
| NR_120548 | ENST00000525436.1,T056746,NR_120548, | ENSMUST00000174870,ENSMUSG00000074987.3_DUP3,AI314831,ENSMUST00000172701,uc008lkn.1,NR_015462, | divergent | 0.06 | 0.45 | -0.34 | 0.5 | 3 | 1, | 2, |
| T057537 | T057537, | ENSMUST00000152313,NR_027831,uc008lgw.2,2810002D19Rik,nod.primed_gene.v2.1_1948.0_chr2, | divergent | 0.07 | 0.13 | -0.38 | 0.0 | 1 | 1, | 1, |
| T057556 | T057556, | ENSMUST00000129661,AK140370,ENSMUST00000134563,uc008lgr.1,ENSMUSG00000075020.5_DUP1, | exonic miRNA host | 0.40 | 0.25 | - | 0.0 | 0 | 2, | 1, |
| T058875 | T058875, | ENSMUSG00000085135.1_DUP1,ENSMUST00000139377,ENSMUST00000155472, | intergenic | 0.60 | 0.04 | 1.32 | 0.0 | 1 | 2, | 2, |
| T060879 | T060879, | ENSMUST00000129675,ENSMUSG00000079467.2_DUP1,ENSMUST00000113496, | divergent | 0.57 | 0.56 | -0.37 | 0.0 | 2 | 1,3, | 2,3, |
| T062586 | T062586, | uc009kqu.2,NR_033626_1151,NR_033626,1810010D01Rik, | intergenic | 0.69 | 0.66 | -0.39 | 0.5 | 2 | 1,3, | 1,2, |
| T064159 | T064159, | ENSMUST00000140957,ENSMUSG00000084975, | divergent | 0.06 | 0.10 | - | 0.0 | 1 | 1,2, | 2, |
| T064964 | T064964, | ENSMUST00000098305,AK084903,uc012fpb.1,rm1.naive_gene.v2.1_3390.0_chr7,ENSMUST00000147198, | divergent | 0.57 | 0.60 | - | 0.0 | 2 | 1,2,3, | 3, |
| T067909 | T067909, | Locus_104421, | intergenic | 0.62 | 0.59 | - | 0.0 | 1 | 1,2, | 2, |
| T068848 | T068848, | Locus_105904, | intergenic | 0.12 | 0.55 | -0.80 | 1.0 | 5 | 1,4, | 5,7, |
| T069232 | T069232, | Locus_105067, | intergenic | 0.65 | 0.67 | - | 0.0 | 1 | 1,2, | 2, |
| T070338 | T070338, | CUFF.11077, | intergenic | 0.60 | 0.65 | 1.04 | 0.5 | 1 | 1,2, | 1,2,3, |
| T072173 | T072173, | Locus_93523, | intergenic | 0.50 | 0.60 | 0.21 | 1.0 | 4 | 1,4,5, | 1,5,6, |
| T072905 | T072905, | DQ715729,uc009dqv.1, | divergent | 0.48 | 0.49 | - | 0.0 | 0 | 1, | 1, |
| T073799 | T073799, | BC099571,uc009efy.1,ENSMUSG00000091870,NR_045270,ENSMUST00000170084, | divergent | 0.42 | 0.31 | - | 0.0 | 1 | 2, | 1, |
| T081420 | T081420, | Locus_67491, | intergenic | 0.67 | 0.67 | - | 0.0 | 0 | 1,2, | 1, |
| T081839 | T081839, | CUFF.242575, | intergenic | 0.60 | 0.57 | - | 0.0 | 0 | 1,2, | 1, |
| T081898 | T081898, | Locus_65882, | intergenic | 0.68 | 0.69 | - | 0.0 | 1 | 1,2,3,4, | 2, |
| T082004 | T082004, | uc007hcm.1,NR_038026,NR_038025,AK016788,uc007hcn.1, | divergent | 0.14 | 0.18 | - | 0.0 | 0 | 1, | 1, |
| T082912 | T082912, | Locus_67336, | intergenic | 0.62 | 0.62 | - | 0.0 | 1 | 1,2, | 4, |
| T083196 | T083196, | ENSMUST00000145794,NR_038032,ENSMUSG00000085282.2, | divergent | 0.07 | 0.64 | -0.25 | 0.0 | 2 | 1, | 1, |
| T086840 | T086840, | CUFF.74511, | intergenic | 0.69 | 0.61 | 0.00 | 0.5 | 1 | 1,2, | 1,2, |
| T087844 | T087844, | NR_045820,ENSMUST00000148466,ENSMUSG00000056735.5,uc008zmw.1,AK079939, | divergent | 0.31 | 0.61 | -1.38 | 0.5 | 2 | 1, | 1, |
| NR_024457 | T089438,NR_024457,ENST00000291374.7,uc010tbi.1,ENST00000567788.1, | uc008zsf.1,AK019810, | intergenic | 0.65 | 0.64 | -0.26 | 0.0 | 2 | 1,2,3, | 3,4, |
| T092427 | T092427, | ENSMUST00000129991,AK138849,ENSMUST00000147034,ENSMUST00000173310,uc009apr.1,ENSMUST00000148010,ENSMUSG00000075529.4,ENSMUST00000155536,ENSMUST00000130391, | intergenic | 0.27 | 0.58 | -1.28 | 1.0 | 2 | 2, | 2, |
| T093295 | T093295, | CUFF.97274, | intergenic | 0.68 | 0.70 | - | 0.0 | 1 | 1,2, | 6, |
| T094524 | T094524, | CUFF.190828, | intergenic | 0.60 | 0.65 | - | 0.0 | 1 | 1,2, | 1, |
| T095053 | T095053, | Locus_40511, | intergenic | 0.65 | 0.63 | - | 0.0 | 1 | 1,2, | 5, |
| T098130 | T098130, | uc007vav.1,ENSMUST00000131416,ENSMUST00000144926,A330035P11Rik,ENSMUSG00000085615.2,NR_015586, | divergent | 0.58 | 0.66 | - | 0.0 | 1 | 1,2, | 1,2, |
| T099367 | T099367, | NR_027975,EG434280,ENSMUST00000080795,NR_027975_1177,uc012fzm.1, | intergenic | 0.18 | 0.14 | 0.08 | 1.5 | 5 | 2,6,7, | 3,5,6, |
| T099485 | T099485, | ENSMUSG00000054910,ENSMUST00000068194,ENSMUST00000131064, | divergent | 0.13 | 0.44 | 0.05 | 0.0 | 1 | 1, | 1,2, |
| ENST00000565098.1 | T100688,ENST00000565098.1, | AK146690,ENSMUST00000143086,ENSMUSG00000085736.1,uc007tos.1, | intergenic | 0.03 | 0.03 | - | 0.0 | 0 | 1, | 1, |
| T104301 | T104301, | ENSMUSG00000085298,AK154735,uc007ntn.1,NR_045174,ENSMUST00000145871, | divergent | 0.23 | 0.23 | -0.19 | 0.0 | 2 | 1, | 2, |
| T104831 | T104831, | AK019723,Locus_41028,uc007tjg.1, | intergenic | 0.70 | 0.71 | - | 0.0 | 1 | 1,2, | 1, |
| T106476 | T106476, | Locus_71658, | intergenic | 0.68 | 0.68 | - | 0.0 | 1 | 1,2, | 3, |
| T106513 | T106513, | NR_037995_1776,ENSMUST00000153297,NR_037995, | divergent | 0.22 | 0.52 | -0.60 | 0.0 | 1 | 1, | 1, |
| T107773 | T107773, | Locus_71011, | intergenic | 0.70 | 0.63 | - | 0.0 | 1 | 1,2, | 1, |
| T109253 | T109253, | CUFF.215562, | intergenic | 0.66 | 0.69 | 0.32 | 1.0 | 1 | 1,2, | 1,2, |
| ENST00000554025.1 | ENST00000554025.1,T110020, | ENSMUST00000144556,NR_045973,ENSMUSG00000085641.1_DUP1,ENSMUST00000130564, | intergenic | 0.62 | 0.27 | -0.47 | 0.0 | 1 | 2, | 2, |
| RIAN | T110380,RIAN, | NR_028261,ENSMUST00000165010,Rian,uc011ysp.1, | intronic miRNA host | 0.15 | 0.28 | 0.00 | 6.5 | 25 | 7,9,12,14,15,16,18,19,20,22,25, | 1,3,6,7,8,9,11,12,13,15,17, |
| T110394 | T110394, | uc007pbd.2,Mirg,NR_028265,ENSMUST00000167157, | exonic miRNA host | 0.21 | 0.51 | 0.05 | 1.5 | 4 | 10,13,14,15,16,17, | 1,3,4,5, |
| T111193 | T111193, | Locus_71903, | intergenic | 0.63 | 0.64 | - | 0.0 | 0 | 1,2, | 1, |
| T114296 | T114296, | ENSMUST00000154367,ENSMUSG00000086197, | intergenic | 0.65 | 0.58 | - | 0.0 | 1 | 1,2, | 2, |
| T114380 | T114380, | ENSMUSG00000086308.1,uc008lrc.1,AK144485,ENSMUST00000152412,ENSMUST00000156095, | intergenic | 0.07 | 0.30 | -1.45 | 1.0 | 3 | 2, | 3, |
| T115730 | T115730, | ENSMUSG00000086913,ENSMUST00000131514, | divergent | 0.18 | 0.67 | 0.32 | 0.5 | 1 | 1, | 1, |
| T116033 | T116033, | AK016335,ENSMUSG00000085633,uc008mbe.1,ENSMUST00000150154, | divergent | 0.27 | 0.57 | -0.73 | 0.0 | 1 | 1, | 1, |
| T116353 | T116353, | AK030357,uc008mcd.1, | divergent | 0.46 | 0.45 | -3.63 | 0.0 | 1 | 1, | 3, |
| T116764 | T116764, | AK017040,ENSMUSG00000086295.1_DUP1,NR_040719,ENSMUST00000132931,uc009qsg.1,ENSMUST00000154618, | divergent | 0.40 | 0.19 | - | 0.0 | 0 | 1,2, | 1, |
| T116895 | T116895, | Onecut1,NR_045284,ENSMUST00000160979,ENSMUST00000160017,NR_045284_1348,uc009qrf.1, | intergenic | 0.71 | 0.70 | 0.19 | 1.5 | 2 | 1,2,3, | 1,2,3, |
| T117807 | T117807, | Locus_104164, | intergenic | 0.73 | 0.68 | - | 0.0 | 1 | 1,2, | 2, |
| T118878 | T118878, | Locus_104774,AK018968,uc009pzm.1, | intergenic | 0.71 | 0.72 | - | 0.0 | 2 | 1,2,3, | 3, |
| ENST00000563278.1 | T119861,ENST00000563278.1, | AK077427,uc009pua.1,ENSMUST00000125333,uc009pub.1,ENSMUST00000162738,ENSMUST00000142077, | intergenic | 0.74 | 0.69 | - | 0.0 | 0 | 1,2, | 1, |
| T120618 | T120618, | AK132723,ENSMUST00000156557,ENSMUSG00000087237.1,uc009iee.1, | divergent | 0.07 | 0.03 | 0.03 | 0.0 | 1 | 1,2, | 1, |
| LINC00925 | uc002bnw.2,NR_015411,ENST00000546186.2,ENST00000538734.2,T121782,LINC00925, | AK047441,NR_040312,NR_040313,NR_040311,uc009hym.1,ENSMUST00000150985,NR_040314,ENSMUST00000141822,NR_040311_1077, | intronic miRNA host | 0.67 | 0.70 | 0.16 | 1.5 | 4 | 1,2,3,5, | 1,3,4,6, |
| T122473 | T122473, | uc009hqy.1,NR_040325,NR_040324,ENSMUST00000167076,AK043101,ENSMUSG00000092033, | divergent | 0.01 | 0.32 | -0.98 | 0.5 | 1 | 1, | 1, |
| T125350 | T125350, | AK011460,rm1.primed_gene.v2.1_1077.0_chr17,NR_045289,uc008awt.1, | snoRNA host | 0.65 | 0.68 | 0.43 | 1.0 | 1 | 1,2, | 1,2, |
| T125968 | T125968, | uc008asy.1,AK047830,ENSMUST00000062827, | intergenic | 0.13 | 0.34 | -0.23 | 7.5 | 17 | 9,10,14,15,16,17,19,20,21,23,25,27,28,29,32,33,34,35,36, | 1,2,3,5,6,7,9,10,11,13,15,16,18, |
| T126911 | T126911, | Locus_7291, | intergenic | 0.62 | 0.49 | - | 0.0 | 1 | 1,2, | 2, |
| T127699 | T127699, | CUFF.166124,NR_037997, | intergenic | 0.68 | 0.64 | - | 0.0 | 1 | 1,2, | 1, |
| T128725 | T128725, | ENSMUST00000145638,AK034016,ENSMUST00000134245,ENSMUSG00000084972,uc009jmv.1, | divergent | 0.14 | 0.21 | 0.22 | 0.0 | 1 | 1,2, | 1,2, |
| T131935 | T131935, | Locus_47077, | intergenic | 0.62 | 0.61 | - | 0.0 | 1 | 1,2, | 2, |
| T133714 | T133714, | Locus_47107, | intergenic | 0.61 | 0.60 | - | 0.0 | 0 | 1,2,3,4, | 1, |
| T133862 | T133862, | Locus_47084, | intergenic | 0.61 | 0.60 | - | 0.0 | 1 | 1,2,3, | 2, |
| T135516 | T135516, | ENSMUSG00000085068.1,ENSMUST00000157018, | divergent | 0.21 | 0.36 | 0.02 | 0.0 | 1 | 2, | 2, |
| T137713 | T137713, | CUFF.33834, | intergenic | 0.70 | 0.70 | - | 0.0 | 0 | 1,2, | 1, |
| T139523 | T139523, | AK006051,ENSMUST00000134252,uc007kde.2,ENSMUSG00000085609.1, | intergenic | 0.58 | 0.46 | -0.07 | 0.0 | 2 | 2,3, | 1,2, |
| T140415 | T140415, | ENSMUST00000152249,ENSMUSG00000085230, | intergenic | 0.66 | 0.62 | -1.68 | 0.0 | 1 | 2, | 2, |
| T140541 | T140541, | ENSMUST00000147937,NR_045922,uc007jyo.1,ENSMUST00000154739,ENSMUSG00000086951.1_DUP1,AK006752, | divergent | 0.06 | 0.41 | 0.39 | 0.0 | 1 | 1,2, | 1,2, |
| T141541 | T141541, | ENSMUSG00000085937.1,ENSMUST00000148019, | divergent | 0.17 | 0.54 | -0.09 | 0.0 | 1 | 1,2, | 1,3, |
| T141636 | T141636, | ENSMUST00000068548,ENSMUSG00000055134.5, | divergent | 0.29 | 0.47 | - | 0.0 | 0 | 1, | 2, |
| T145264 | T145264, | Locus_12586, | intergenic | 0.60 | 0.60 | - | 0.0 | 0 | 1,2, | 1, |
| ENST00000592381.1 | T145874,ENST00000592381.1, | NR_028364,NR_028363_1719,NR_028363,Snord7,uc007kom.2,uc011ybh.1,AA465934, | snoRNA host | 0.48 | 0.16 | -0.54 | 0.5 | 1 | 1,2, | 1, |
| ENST00000572349.1 | ENST00000572349.1,T149202, | ENSMUST00000129780,uc007lvp.1,ENSMUSG00000085154.1_DUP1,ENSMUST00000154471,AK142001, | divergent | 0.42 | 0.60 | -0.14 | 0.0 | 1 | 1,2, | 1,2, |
| T149892 | T149892, | ENSMUST00000145517,ENSMUSG00000086337, | intergenic | 0.68 | 0.66 | - | 0.0 | 1 | 1,2, | 2, |
| T149989 | T149989, | ENSMUSG00000085578,ENSMUST00000153795, | intergenic | 0.69 | 0.68 | - | 0.0 | 1 | 1,2, | 2, |
| T150965 | T150965, | Locus_12392, | intergenic | 0.61 | 0.60 | - | 0.0 | 0 | 1,2,3, | 1, |
| T151269 | T151269, | ENSMUST00000168909,ENSMUSG00000091914.1, | divergent | 0.35 | 0.14 | 0.17 | 0.0 | 1 | 1, | 2, |
| ENST00000559739.1 | ENST00000559739.1,T151720,ENST00000558027.1, | NR_028329,ENSMUSG00000085628,uc007krk.2,ENSMUST00000136454,D630032N06Rik, | divergent | 0.16 | 0.54 | 0.42 | 0.0 | 2 | 1, | 1, |
| T152871 | T152871, | AK043804,ENSMUST00000147445,ENSMUSG00000059706.4,uc007mat.1, | intergenic | 0.40 | 0.59 | -1.62 | 0.5 | 1 | 1, | 1, |
| ENST00000591283.1 | T155191,ENST00000591283.1, | Locus_11976, | intergenic | 0.66 | 0.61 | - | 0.0 | 1 | 1,2, | 2, |
| T155308 | T155308, | Locus_12651, | intergenic | 0.69 | 0.69 | - | 0.0 | 1 | 1,2, | 1, |
| T156421 | T156421, | 2810410L24Rik,uc007msb.2,NR_030682,NR_030682_1774,ENSMUST00000155681,ENSMUST00000145437, | intergenic | 0.49 | 0.64 | -0.06 | 1.0 | 1 | 1,3, | 1,2, |
| T158109 | T158109, | Locus_27956, | intergenic | 0.66 | 0.52 | - | 0.0 | 0 | 1,2, | 1, |
| T163230 | T163230, | NR_040630,NR_040630_93, | divergent | 0.21 | 0.04 | -1.15 | 0.0 | 2 | 1, | 1, |
| T164221 | T164221, | Locus_3179, | intergenic | 0.64 | 0.64 | - | 0.0 | 1 | 1,2, | 3, |
| T164291 | T164291, | AK007073,uc008fuj.1, | intergenic | 0.65 | 0.65 | 0.56 | 0.0 | 1 | 1,2, | 1,2, |
| T166081 | T166081, | ENSMUST00000151303,ENSMUSG00000087114.1_DUP1,uc007gfp.1,AK138328,ENSMUST00000151873, | divergent | 0.27 | 0.35 | -0.54 | 0.0 | 1 | 2, | 2, |
| LOC100507373 | T169449,LOC100507373,NR_045214,uc002myf.3,ENST00000588387.1, | uc009mlj.1,AK157878,ENSMUST00000098595, | intergenic | 0.06 | 0.58 | -1.58 | 1.0 | 2 | 1,2, | 1,2, |
| T173127 | T173127, | ENSMUSG00000085923.1,ENSMUST00000146269, | divergent | 0.10 | 0.29 | - | 0.0 | 1 | 2, | 2, |
| AK024119 | T176160,ENST00000559786.1,AK024119,uc002ost.1, | ENSMUST00000098678,AK142847,uc009frs.1,NR_045847,NR_045848,NR_045847_1018, | intergenic | 0.71 | 0.71 | -0.06 | 0.5 | 1 | 1,2,3, | 1,2, |
| T178408 | T178408, | ENSMUST00000135933,ENSMUST00000145208,NR_038165_1048,ENSMUST00000132138,uc009gwb.1,ENSMUST00000123549,ENSMUST00000148383,NR_038166,ENSMUST00000142260,NR_038165,ENSMUST00000133678,AK085337,ENSMUST00000130094, | intergenic | 0.53 | 0.51 | -0.66 | 1.0 | 2 | 1,3,4, | 1,2,3, |
| T183359 | T183359, | Locus_70868, | intergenic | 0.11 | 0.02 | -0.04 | 1.0 | 6 | 8,10, | 1,2, |
| T184845 | T184845, | ENSMUSG00000087421,uc007nbr.1,AK045700,ENSMUST00000156825, | divergent | 0.07 | 0.16 | -0.14 | 0.5 | 1 | 1,2, | 1,2, |
| T185023 | T185023, | Locus_71630, | intergenic | 0.60 | 0.59 | - | 0.0 | 1 | 1,2, | 2, |
| T185118 | T185118, | Locus_71108, | intergenic | 0.60 | 0.57 | - | 0.0 | 1 | 1,2,3, | 2, |
| T185671 | T185671, | uc007nab.1,AK089512,ENSMUST00000151902,ENSMUSG00000087567, | divergent | 0.19 | 0.10 | - | 0.0 | 1 | 2, | 1, |
| T187816 | T187816, | 4930429F11Rik,uc012axm.1,NR_033463,NR_033463_2463, | intergenic | 0.64 | 0.60 | - | 0.0 | 1 | 1,2, | 3, |
| T187829 | T187829, | Locus_27893, | intergenic | 0.60 | 0.58 | - | 0.0 | 0 | 1,2, | 1, |
| T187885 | T187885, | Locus_27506, | intergenic | 0.80 | 0.71 | - | 0.0 | 0 | 1,2, | 1, |
| T188269 | T188269, | NR_045094,Locus_27604, | intergenic | 0.73 | 0.72 | - | 0.0 | 1 | 1,2, | 2, |
| T188496 | T188496, | NR_045458_2467,NR_045458, | intergenic | 0.61 | 0.60 | 0.25 | 0.5 | 2 | 1,2,4,5,6, | 2,3, |
| T188697 | T188697, | NR_038085,NR_038084,ENSMUST00000160691,NR_038086,ENSMUST00000162095,NR_038083,NR_038082,NR_015387,NR_015386,NR_015385,uc012ayf.1,ENSMUST00000161688,ENSMUST00000161146,ENSMUST00000159134,ENSMUST00000160176,ENSMUST00000161439,ENSMUST00000159030,NR_038086_2474,Six3os1,ENSMUST00000070429, | intergenic | 0.72 | 0.69 | -0.30 | 1.5 | 2 | 1,2,3,4, | 1,2,3, |
| T189763 | T189763, | ENSMUST00000138164,ENSMUSG00000085510.1, | intronic miRNA host | 0.22 | 0.10 | -0.05 | 0.0 | 2 | 4, | 3, |
| T189782 | T189782, | ENSMUST00000146554,NR_045906,ENSMUSG00000084966, | intergenic | 0.33 | 0.57 | -0.95 | 1.0 | 2 | 1,2, | 1,2, |
| T190433 | T190433, | AK038605,ENSMUSG00000087253,uc007idu.1,ENSMUST00000131570, | intergenic | 0.15 | 0.47 | - | 0.0 | 1 | 2, | 1, |
| T193232 | T193232, | Locus_92756, | intergenic | 0.61 | 0.62 | - | 0.0 | 1 | 1,2, | 1, |
| T196502 | T196502, | BB019430,NR_033565_1561,NR_033565,uc007fdi.1, | intergenic | 0.04 | 0.21 | -0.13 | 1.0 | 3 | 3, | 1, |
| T196789 | T196789, | Locus_34816, | intergenic | 0.60 | 0.62 | - | 0.0 | 1 | 1,2, | 2, |
| T196821 | T196821, | ENSMUSG00000079053,ENSMUST00000131961, | intergenic | 0.62 | 0.61 | - | 0.0 | 1 | 1,2, | 1, |
| T197726 | T197726, | CUFF.133770, | intergenic | 0.66 | 0.24 | -2.97 | 0.0 | 1 | 2, | 1, |
| T197997 | T197997, | Locus_81063, | intergenic | 0.62 | 0.11 | - | 0.0 | 1 | 2, | 1, |
| T202050 | T202050, | AK136239,uc008jvu.1, | intergenic | 0.60 | 0.28 | -1.27 | 0.0 | 2 | 6, | 3, |
| T203289 | T203289, | ENSMUSG00000075281,ENSMUST00000100005, | intergenic | 0.46 | 0.15 | - | 0.0 | 0 | 2, | 1, |
| HOXD-AS1 | ENST00000416928.2,NR_110459,NR_110458,uc021vsq.1,uc002uku.3,NR_110466,NR_110467,NR_110464,NR_110465,NR_110462,HOXD-AS1,NR_110460,NR_110461,NR_033979,T203414,NR_110468,NR_110463, | ENSMUSG00000075277.4_DUP1,ENSMUST00000152462, | divergent | 0.62 | 0.55 | -0.18 | 0.5 | 2 | 1,2,3, | 1,3,4, |
| T207422 | T207422, | CUFF.130178, | intergenic | 0.71 | 0.62 | -0.22 | 0.0 | 1 | 1,2, | 1,3, |
| T208153 | T208153, | ENSMUST00000152799,NR_037976,AK039780,ENSMUSG00000085653.1,ENSMUST00000130095,uc007boy.1, | intergenic | 0.66 | 0.59 | - | 0.0 | 0 | 1,2,3, | 1, |
| T209579 | T209579, | Locus_80218, | intergenic | 0.67 | 0.57 | -0.23 | 0.0 | 1 | 1,2, | 1,4, |
| T213211 | T213211, | ENSMUSG00000027345,ENSMUST00000124095,NR_045802, | intergenic | 0.10 | 0.01 | - | 1.0 | 0 | 2, | 1, |
| T214812 | T214812, | ENSMUST00000139345,ENSMUSG00000087618.1, | intergenic | 0.68 | 0.70 | -0.43 | 0.5 | 1 | 1, | 1, |
| LINC00261 | LINC00261,uc010zsp.2,ENST00000564492.1,T215039,NR_001558, | ENSMUSG00000086141.1_DUP1,ENSMUST00000136555,ENSMUST00000129082,ENSMUST00000132070, | intergenic | 0.08 | 0.32 | -0.57 | 1.0 | 4 | 2, | 2, |
| T215496 | T215496, | uc008mug.1,NR_040331,ENSMUST00000145525,AK042041, | divergent | 0.43 | 0.59 | -0.09 | 0.0 | 1 | 2, | 2, |
| T218087 | T218087, | uc008nsb.1,NR_033569,ENSMUSG00000054457,9430021M05Rik,ENSMUST00000145985, | divergent | 0.18 | 0.63 | -2.16 | 0.5 | 1 | 1, | 1, |
| T219494 | T219494, | ENSMUST00000147446,AK003793,uc008nzj.1,ENSMUST00000151217,ENSMUSG00000085151.1_DUP1,uc008nzk.1,ENSMUST00000138928,AY672066, | divergent | 0.47 | 0.49 | 1.42 | 0.0 | 2 | 2,3, | 2, |
| T220695 | T220695, | ENSMUSG00000087382.1,ENSMUST00000142165, | divergent | 0.36 | 0.26 | 0.18 | 0.0 | 2 | 1, | 3, |
| T220812 | T220812, | Locus_36589, | intergenic | 0.64 | 0.58 | - | 0.0 | 1 | 1,2,3,4,5, | 2, |
| T221595 | T221595, | NR_033782,rm1.primed_gene.v2.1_3029.0_chr2,4921531C22Rik,uc008ohx.1,ENSMUST00000150145, | divergent | 0.61 | 0.61 | - | 0.0 | 0 | 1,2,3, | 1, |
| T221783 | T221783, | ENSMUST00000069943,NR_045877_361,NR_045877, | intergenic | 0.29 | 0.06 | - | 1.0 | 2 | 5, | 1, |
| T224444 | T224444, | Locus_6576, | intergenic | 0.61 | 0.60 | - | 0.0 | 1 | 1,2,3, | 2, |
| T225087 | T225087, | AK090163,ENSMUST00000171829,uc007zwk.1,ENSMUSG00000091946, | divergent | 0.26 | 0.34 | - | 0.0 | 1 | 1,2, | 1,2, |
| T226258 | T226258, | ENSMUSG00000022915.3,ENSMUST00000143671, | divergent | 0.55 | 0.53 | -0.34 | 0.0 | 1 | 2, | 2, |
| T231471 | T231471, | Locus_53941, | intergenic | 0.64 | 0.65 | - | 0.0 | 1 | 1,2, | 4, |
| T231538 | T231538, | CUFF.73222, | intergenic | 0.71 | 0.70 | - | 0.0 | 0 | 1,2, | 1, |
| T231605 | T231605, | Locus_54439, | intergenic | 0.70 | 0.65 | - | 0.0 | 0 | 1,2, | 1, |
| TUG1 | TUG1,ENST00000519077.3,NR_110493,NR_110492,NR_002323,uc003aji.3,T232195,ENST00000540687.1, | ENSMUSG00000056579.9_DUP1,Tug1,NR_002321,uc007htj.1,ENSMUST00000153313,ENSMUST00000144852, | intergenic | 0.77 | 0.74 | -0.53 | 2.0 | 2 | 1,2,3,4, | 1,2,3, |
| T234306 | T234306, | Locus_21544, | intergenic | 0.64 | 0.64 | - | 0.0 | 0 | 1,2, | 1, |
| T235307 | T235307, | Locus_22426, | intergenic | 0.64 | 0.16 | - | 0.0 | 1 | 2, | 1, |
| T239143 | T239143, | cast.naive_gene.v2.1_1172.0_chr14, | intergenic | 0.66 | 0.61 | - | 0.0 | 0 | 1,2, | 1, |
| T240691 | T240691, | Locus_105545, | intergenic | 0.62 | 0.61 | - | 0.0 | 1 | 1,2, | 2, |
| T245716 | T245716, | Locus_6470, | intergenic | 0.70 | 0.65 | -2.69 | 0.5 | 1 | 2, | 3, |
| T246512 | T246512, | ENSMUST00000159613,ENSMUST00000160040,ENSMUSG00000089685.1, | divergent | 0.15 | 0.39 | -1.29 | 0.5 | 2 | 1,2, | 1,3, |
| T246683 | T246683, | ENSMUSG00000086827,AK015492,ENSMUST00000133622,uc007znn.1, | divergent | 0.29 | 0.56 | -0.66 | 0.0 | 1 | 1,2, | 1,2, |
| LINC00883 | ENST00000466734.1,T247554,uc003dwg.4,LINC00883,NR_028301, | ENSMUST00000169791,uc012agm.1,ENSMUST00000089395,NR_028300_2304,NR_028300,5330426P16Rik, | intergenic | 0.62 | 0.65 | 0.24 | 1.0 | 1 | 1,2, | 1,2, |
| T247642 | T247642, | CUFF.170453, | intergenic | 0.65 | 0.66 | - | 0.0 | 1 | 1,2, | 2, |
| T248960 | T248960, | NR_033221_2296,BC031361,uc007zem.2,NR_033221, | divergent | 0.64 | 0.64 | - | 0.0 | 0 | 1, | 1, |
| T255747 | T255747, | ENSMUST00000122858,ENSMUSG00000085655.1_DUP1,ENSMUST00000144542, | divergent | 0.23 | 0.63 | 0.11 | 0.0 | 1 | 1,2, | 1,2, |
| T262406 | T262406, | uc008xke.1,AK076709, | intergenic | 0.61 | 0.63 | - | 0.0 | 1 | 1,2, | 4, |
| NR_102709 | T263902,ENST00000507190.1,NR_102709, | AK078321,uc008xpe.1,ENSMUSG00000087601.1,ENSMUST00000152002, | divergent | 0.06 | 0.03 | 0.08 | 0.5 | 3 | 4, | 2,3, |
| T266525 | T266525, | uc008ybr.1,AK019057, | intergenic | 0.14 | 0.33 | 0.65 | 0.5 | 1 | 1, | 1, |
| T268988 | T268988, | uc008rkt.1,ENSMUST00000166789, | exonic miRNA host | 0.06 | 0.33 | - | 0.5 | 1 | 1, | 1, |
| BC040219 | BC040219,T271458,uc003igy.3,ENST00000505289.1,NR_125885, | uc008pcx.1,AK012035,ENSMUSG00000086101.1,NR_045172,ENSMUST00000136747, | divergent | 0.11 | 0.21 | -3.15 | 0.5 | 8 | 1, | 1, |
| ENST00000609153.1 | ENST00000609153.1,T274517, | AK141659,ENSMUSG00000086276,uc009lsv.1,ENSMUST00000139440, | divergent | 0.04 | 0.17 | -0.70 | 0.0 | 2 | 1, | 1, |
| T274745 | T274745, | Locus_46273, | intergenic | 0.65 | 0.56 | -0.22 | 0.0 | 1 | 1,2, | 1,2, |
| T275382 | T275382, | AK083994,ENSMUST00000098781,uc009lrg.1, | divergent | 0.52 | 0.56 | -0.09 | 0.5 | 1 | 1,2, | 1,3, |
| T275574 | T275574, | ENSMUSG00000085052,uc009lqn.1,NR_045750,AK144632,ENSMUST00000126988, | divergent | 0.36 | 0.51 | 0.21 | 0.0 | 1 | 1,2,3, | 1,2, |
| T277967 | T277967, | NR_046196_1988,NR_046196, | intergenic | 0.60 | 0.61 | - | 0.0 | 1 | 1,2,3,4, | 2, |
| T279918 | T279918, | ENSMUST00000150382,ENSMUSG00000084873.1, | divergent | 0.13 | 0.00 | -1.62 | 0.5 | 1 | 1, | 1, |
| T280805 | T280805, | AK047938,NR_045065,ENSMUST00000152765,NR_045065_2146,uc007vgt.1, | divergent | 0.62 | 0.59 | -0.66 | 0.0 | 2 | 3,4, | 3, |
| ENST00000508853.1 | ENST00000508853.1,T281189, | Locus_21993, | intronic miRNA host | 0.25 | 0.58 | 0.18 | 0.0 | 1 | 3, | 2, |
| T282999 | T282999, | ENSMUSG00000090358.1,ENSMUST00000164299, | divergent | 0.14 | 0.37 | 0.43 | 0.0 | 1 | 1,2, | 1,2, |
| LINC00461 | ENST00000504246.1,NR_024383,ENST00000511014.2,ENST00000505030.1,NR_024384,uc003kjg.3,ENST00000500197.2,LINC00461,T285571, | ENSMUSG00000050334.5_DUP1,ENSMUST00000052354,ENSMUST00000131907, | exonic miRNA host | 0.84 | 0.76 | -0.80 | 3.0 | 3 | 1,2,3,4, | 1,2,3,4, |
| T285784 | T285784, | ENSMUST00000125313,ENSMUSG00000085266.1, | intronic miRNA host | 0.18 | 0.03 | -0.06 | 0.0 | 2 | 2,3, | 4,5, |
| T285804 | T285804, | uc007rhk.1,AK017339, | intergenic | 0.62 | 0.58 | -0.22 | 0.5 | 1 | 1,2, | 2,4, |
| T286885 | T286885, | ENSMUSG00000086594.2,uc008dfa.1,AK015703,ENSMUST00000145848, | intergenic | 0.43 | 0.05 | - | 1.0 | 1 | 3,4, | 1, |
| T287147 | T287147, | CUFF.162223, | intergenic | 0.38 | 0.13 | - | 1.0 | 1 | 2, | 1, |
| T287503 | T287503, | Locus_2944, | intergenic | 0.65 | 0.59 | - | 0.0 | 0 | 1,2, | 1, |
| ENST00000502809.1 | T288278,ENST00000502809.1, | CUFF.151519, | intergenic | 0.60 | 0.35 | -0.13 | 0.5 | 1 | 2, | 2, |
| T290232 | T290232, | NR_027885_2530,uc012bbu.1,NR_027885,ENSMUST00000083211,Vaultrc5, | intergenic | 0.65 | 0.65 | - | 0.0 | 0 | 1, | 1, |
| ENST00000505254.2 | uc003lqp.2,ENST00000602964.1,ENST00000602315.1,ENST00000505254.2,T291200, | uc008fcj.1,AK087736,NR_045402,NR_045402_2548,ENSMUST00000154522, | intergenic | 0.53 | 0.63 | 0.02 | 2.0 | 4 | 2,3,4,5, | 3,4,5, |
| T293551 | T293551, | Locus_14389, | intergenic | 0.68 | 0.65 | - | 0.0 | 1 | 1,2, | 3, |
| T294865 | T294865, | ENSMUST00000154068,ENSMUSG00000085564, | divergent | 0.50 | 0.52 | - | 0.0 | 1 | 2, | 1,2, |
| T295738 | T295738, | uc007pzn.1,AK142058,ENSMUST00000140980, | divergent | 0.18 | 0.17 | -0.33 | 0.5 | 3 | 1, | 1, |
| T295924 | T295924, | Locus_86360, | intergenic | 0.63 | 0.59 | - | 0.0 | 1 | 1,2, | 6, |
| T296257 | T296257, | Locus_86205, | intergenic | 0.60 | 0.59 | - | 0.0 | 0 | 1,2, | 1, |
| T296741 | T296741, | Locus_87340, | intergenic | 0.67 | 0.63 | - | 0.0 | 0 | 1,2, | 1, |
| T297760 | T297760, | CUFF.199829, | intergenic | 0.66 | 0.38 | -0.21 | 0.0 | 1 | 1, | 1, |
| T298355 | T298355, | NR_038004_1914,ENSMUST00000061899,NR_038004, | intergenic | 0.07 | 0.25 | -0.94 | 1.0 | 7 | 1,2, | 5,6, |
| T299206 | T299206, | ENSMUST00000148743,ENSMUSG00000085016.1, | divergent | 0.46 | 0.57 | -0.41 | 0.0 | 1 | 2, | 2, |
| T302200 | T302200, | ENSMUSG00000086485,ENSMUST00000156950, | intergenic | 0.72 | 0.26 | 0.52 | 0.0 | 2 | 2,3, | 4, |
| TDRG1 | T303195,ENST00000448433.1,ENST00000373170.2,TDRG1, | AK005780,NR_038143_2446,NR_038141,NR_038142,NR_038143,NR_038144,NR_038145,uc008cye.1, | intergenic | 0.61 | 0.66 | -0.46 | 1.0 | 2 | 1,2,3, | 1,2,3, |
| T303439 | T303439, | Locus_27828, | intergenic | 0.63 | 0.59 | - | 0.0 | 1 | 1,2, | 3, |
| T307753 | T307753, | Locus_112244, | intronic miRNA host | 0.07 | 0.04 | -0.58 | 0.0 | 1 | 1, | 2, |
| T308884 | T308884, | ENSMUSG00000090088.1,ENSMUST00000162062, | intergenic | 0.42 | 0.12 | - | 0.0 | 0 | 2, | 1, |
| T309962 | T309962, | Locus_66431, | intergenic | 0.61 | 0.58 | -0.02 | 0.0 | 1 | 1,2, | 2,4, |
| T310475 | T310475, | NR_038016,ENSMUSG00000084765,AK138755,uc007fbz.1,ENSMUST00000136349, | divergent | 0.02 | 0.63 | -0.70 | 0.0 | 2 | 1, | 1, |
| T312197 | T312197, | NR_038022,NR_038021,AK044491,Locus_66030,uc007enc.1, | intergenic | 0.68 | 0.61 | - | 0.0 | 1 | 1,2, | 3, |
| T312320 | T312320, | AK139076,uc007emp.1, | divergent | 0.12 | 0.05 | - | 0.0 | 0 | 1, | 1, |
| BC038188 | T312533,uc003qis.3,NR_121622,ENST00000446458.1,ENST00000456896.1,BC038188,NR_121623, | AK029503,NR_038020,uc007els.1, | intergenic | 0.05 | 0.31 | -3.39 | 1.0 | 4 | 2, | 3, |
| T313485 | T313485, | A630066F11Rik,NR_030698,NR_030698_1523,uc007eib.2, | divergent | 0.26 | 0.26 | - | 0.0 | 0 | 1, | 1, |
| T314453 | T314453, | Locus_26452, | intergenic | 0.63 | 0.61 | - | 0.0 | 1 | 1,2,3, | 2, |
| ENST00000608721.1 | ENST00000608721.1,T314736, | NR_045290,NR_045290_2371,AK029100,ENSMUST00000165110,uc008akr.1, | divergent | 0.07 | 0.10 | - | 0.0 | 0 | 1, | 1, |
| CAHM | T314887,CAHM,ENST00000604200.1,uc021zib.1,NR_037593, | uc012ajw.1,NR_037588,B930003M22Rik,NR_037588_2369, | intergenic | 0.64 | 0.64 | - | 0.0 | 0 | 1, | 1, |
| T316561 | T316561, | CUFF.156391, | intergenic | 0.68 | 0.64 | - | 0.0 | 0 | 1,2, | 1, |
| T318538 | T318538, | CUFF.50595, | intergenic | 0.60 | 0.60 | - | 0.0 | 0 | 1,2, | 1, |
| T319701 | T319701, | CUFF.217112, | intergenic | 0.61 | 0.49 | - | 0.0 | 1 | 1,2, | 2, |
| T320349 | T320349, | uc009bxj.1,AK002748, | intergenic | 0.62 | 0.63 | - | 0.0 | 1 | 1,2, | 2, |
| T320609 | T320609, | NR_038163,uc009byu.1,ENSMUST00000125305,ENSMUSG00000086126.1,AK031498, | intergenic | 0.40 | 0.56 | 0.57 | 1.5 | 3 | 1,2,3,4, | 1,2,3,5, |
| T323284 | T323284, | Locus_12721, | intergenic | 0.68 | 0.68 | - | 0.0 | 1 | 1,2, | 8, |
| T327796 | T327796, | ENSMUST00000163076,ENSMUSG00000089926.1, | divergent | 0.06 | 0.49 | 0.23 | 0.0 | 1 | 1, | 1, |
| ENST00000430027.3 | ENST00000430027.3,T328745, | ENSMUST00000159568,ENSMUSG00000090063.1_DUP1,uc009awu.1,NR_015388,Dlx6os1,ENSMUST00000159827, | intergenic | 0.60 | 0.65 | 0.49 | 0.5 | 1 | 1,2, | 1,2, |
| T329536 | T329536, | ENSMUST00000159838,NR_040700_807,NR_040700, | divergent | 0.35 | 0.40 | 0.33 | 0.0 | 1 | 1,2,3,4, | 1, |
| T333148 | T333148, | ENSMUST00000140275,uc009bfb.1,AK007083,ENSMUST00000128017,ENSMUSG00000084861.1_DUP1, | divergent | 0.55 | 0.43 | - | 0.0 | 0 | 1, | 1, |
| ENST00000439694.1 | ENST00000439694.1,T334035, | ENSMUSG00000073154.4_DUP5,NR_015589,9330158H04Rik,ENSMUST00000161161,uc009biv.1, | intergenic | 0.52 | 0.37 | -0.47 | 0.0 | 3 | 6, | 4, |
| T335365 | T335365, | CUFF.53566, | intergenic | 0.68 | 0.66 | - | 0.0 | 0 | 1,2, | 1, |
| T336621 | T336621, | ENSMUSG00000085535.1,ENSMUST00000130434, | divergent | 0.11 | 0.13 | -0.21 | 0.0 | 1 | 2, | 2, |
| T336872 | T336872, | ENSMUST00000167870,ENSMUSG00000090931.1, | divergent | 0.05 | 0.04 | - | 0.0 | 1 | 1, | 1,2, |
| T338024 | T338024, | Locus_46329, | intergenic | 0.62 | 0.61 | - | 0.0 | 1 | 1,2, | 7, |
| T340552 | T340552, | AK046150,NR_045091_2088,uc007umh.1,ENSMUST00000134997,NR_045091, | divergent | 0.35 | 0.53 | 0.23 | 0.0 | 2 | 2,3, | 2, |
| T343823 | T343823, | ENSMUSG00000090031.1,ENSMUST00000159618, | divergent | 0.70 | 0.69 | 0.05 | 0.5 | 1 | 1,2, | 1,2, |
| T344470 | T344470, | ENSMUSG00000087099,ENSMUST00000131675, | intergenic | 0.66 | 0.41 | - | 0.0 | 1 | 2, | 1, |
| T345030 | T345030, | Locus_99751, | intergenic | 0.60 | 0.56 | - | 0.0 | 1 | 1,2, | 5, |
| T345421 | T345421, | Locus_80657, | intergenic | 0.61 | 0.50 | - | 0.0 | 1 | 1,2, | 2, |
| T345520 | T345520, | Locus_80268, | intergenic | 0.10 | 0.10 | - | 1.0 | 4 | 4, | 5, |
| T345786 | T345786, | CUFF.125287, | intergenic | 0.63 | 0.61 | - | 0.0 | 2 | 1,2,3, | 3, |
| T348633 | T348633, | uc007vnd.1, | divergent | 0.52 | 0.27 | -0.90 | 0.0 | 1 | 1, | 1, |
| T348869 | T348869, | Locus_21890, | intergenic | 0.62 | 0.67 | - | 0.0 | 1 | 1,2, | 1, |
| ENST00000518927.1 | T349209,ENST00000518927.1, | Locus_21862, | intergenic | 0.81 | 0.80 | -1.38 | 1.0 | 1 | 1,2, | 1,2, |
| T349918 | T349918, | NR_045092_2129,NR_045092, | intergenic | 0.09 | 0.05 | 0.28 | 1.0 | 2 | 4, | 1, |
| T351662 | T351662, | AK015428,uc007vys.1, | intergenic | 0.75 | 0.69 | - | 0.0 | 1 | 1,2, | 2, |
| T355587 | T355587, | ENSMUSG00000092492.1,ENSMUST00000173049, | divergent | 0.19 | 0.63 | 0.10 | 0.0 | 1 | 1, | 1, |
| T360792 | T360792, | NR_045355_2596,ENSMUST00000151954,uc008gws.1,NR_045355,AK048429, | divergent | 0.16 | 0.19 | - | 0.0 | 0 | 1,2, | 1, |
| T362727 | T362727, | ENSMUSG00000086889.1,ENSMUST00000123212, | intergenic | 0.47 | 0.61 | 0.12 | 0.5 | 2 | 1,2,3, | 1,2,3, |
| T363073 | T363073, | Locus_86502, | intergenic | 0.76 | 0.59 | - | 0.0 | 0 | 1,2, | 1, |
| NR_121580 | ENST00000603487.1,NR_121580,T364042, | uc008swi.1,ENSMUSG00000085763,NR_045175,AK012547,ENSMUST00000141473, | divergent | 0.57 | 0.55 | -0.09 | 0.0 | 1 | 1,2, | 1,3, |
| T366297 | T366297, | Locus_35651, | intergenic | 0.66 | 0.63 | - | 0.0 | 1 | 1,2, | 2, |
| T366541 | T366541, | Locus_34376, | intergenic | 0.67 | 0.64 | - | 0.0 | 1 | 1,2, | 4, |
| KIAA1984-AS1 | ENST00000414656.1,uc004cjg.1,KIAA1984-AS1,T369579,NR_024580, | ENSMUSG00000052403.5_DUP2,ENSMUST00000127642,uc008isw.1,ENSMUST00000163217,AK039020,ENSMUST00000155684,ENSMUST00000135799, | intergenic | 0.12 | 0.18 | -1.04 | 1.0 | 3 | 2, | 2, |
| T371502 | T371502, | Locus_17575, | intergenic | 0.61 | 0.59 | - | 0.0 | 1 | 1,2, | 9, |
| T372351 | T372351, | ENSMUST00000112542,uc009urx.1,AK028243, | intergenic | 0.09 | 0.03 | 0.02 | 1.0 | 2 | 4, | 1, |
| T373165 | T373165, | ENSMUSG00000073288,ENSMUST00000101687, | divergent | 0.15 | 0.65 | -1.34 | 0.0 | 1 | 1, | 1, |
| T373845 | T373845, | Locus_17536, | intergenic | 0.68 | 0.63 | -1.02 | 0.5 | 1 | 1,2, | 1,2, |
| T374456 | T374456, | ENSMUST00000126286,AK010638,uc009sno.1,ENSMUST00000153013, | intergenic | 0.65 | 0.58 | -1.04 | 1.0 | 2 | 3,4, | 2,3, |
| T374981 | T374981, | ENSMUST00000154085,ENSMUST00000135115,NR_040270,NR_040269,ENSMUST00000149098,ENSMUST00000141922,ENSMUSG00000087403.1_DUP3,ENSMUST00000148326, | intergenic | 0.58 | 0.57 | -0.08 | 1.5 | 2 | 1,2,3, | 1,2,3, |
| mir-223 | uc004dwg.1,T375702,mir-223, | NR_030718,ENSMUST00000147681,uc009tuh.2,F630028O10Rik,ENSMUST00000133125,ENSMUSG00000078122.3, | exonic miRNA host | 0.56 | 0.67 | 0.56 | 0.5 | 2 | 1,3, | 1,2,3, |
| T376261 | T376261, | ENSMUST00000144761,NR_040285,ENSMUST00000138614,ENSMUSG00000085568.1_DUP1, | intergenic | 0.33 | 0.02 | -1.43 | 0.5 | 1 | 1,2, | 1,2, |
| T376815 | T376815, | uc012hnx.1,ENSMUST00000145250,AK155344,ENSMUSG00000086629.1_DUP4, | divergent | 0.25 | 0.40 | -0.28 | 0.0 | 1 | 1,2, | 1,2, |
| T378599 | T378599, | ENSMUSG00000085146.1,ENSMUST00000125609,AK090061,uc009ulf.1, | intergenic | 0.03 | 0.50 | -0.48 | 1.0 | 3 | 2, | 2, |
| T379810 | T379810, | Locus_17188, | divergent | 0.09 | 0.63 | 0.47 | 0.0 | 1 | 1, | 1, |
| T380317 | T380317, | uc012hhi.1,ENSMUST00000143479,ENSMUST00000133214,Kis2,NR_003188,ENSMUSG00000086173.1_DUP1,ENSMUST00000138156, | exonic miRNA host | 0.69 | 0.74 | -0.04 | 0.5 | 1 | 1,2, | 1,2, |
| C1orf167 | TCONS_00000038,C1orf167, | ENSMUST00000144031,ENSMUSG00000078494, | intergenic | 0.53 | 0.25 | -1.56 | 1.0 | 1 | 2,3, | 1,2, |
| TCONS_00004240 | TCONS_00004240, | uc012ayl.1,AK135560, | intergenic | 0.71 | 0.68 | -0.72 | 0.0 | 1 | 1,2, | 1,2, |
| NR_110159 | TCONS_00013565,NR_110159, | NR_038149,NR_038149_851,AK006052,uc009aym.1, | intergenic | 0.69 | 0.60 | -1.29 | 1.0 | 1 | 1,2, | 1,2, |
| TCONS_00021074 | TCONS_00021074, | 2810454H06Rik,NR_029441,uc012eup.1,NR_029441_947, | divergent | 0.31 | 0.56 | - | 0.0 | 0 | 1, | 1, |
| TCONS_00024657 | TCONS_00024657, | AK077163,uc009msd.1, | intergenic | 0.63 | 0.49 | - | 0.0 | 1 | 2, | 1, |
| TCONS_00025223 | TCONS_00025223, | nod.primed_gene.v2.1_1981.0_chr11, | divergent | 0.45 | 0.65 | -0.05 | 0.0 | 1 | 1,2, | 1, |
| AK126318 | TCONS_00025708,AK126318, | uc007kve.1,AK040276,ENSMUSG00000087373.1,ENSMUST00000153213,ENSMUST00000152627,ENSMUST00000156149, | intergenic | 0.80 | 0.71 | -0.15 | 1.0 | 1 | 1,2,3, | 1,2, |
| NR_110543 | NR_110543,TCONS_00029550, | Locus_54573, | intergenic | 0.16 | 0.16 | 0.29 | 1.0 | 3 | 2, | 4, |
| H19 | ENST00000439725.1,H19,ENST00000436715.1,ENST00000431095.1,gene.v2.1_1000.0_chr11_1.32.ADD,NR_002196,ENST00000442037.1,ENST00000417089.1,ENST00000422826.1,uc021qby.1,ENST00000411861.1,ENST00000411754.1,ENST00000446406.1,ENST00000412788.1,NR_131223,ENST00000414790.1,NR_131224, | cast.primed_gene.v2.1_1547.0_chr7,H19,uc012fxn.1,ENSMUST00000140716,ENSMUST00000152754,NR_001592,ENSMUST00000149974,ENSMUST00000136359, | exonic miRNA host | 0.74 | 0.73 | -0.64 | 3.5 | 4 | 1,2,3,4,5, | 1,2,3,4,5, |
| NR_121637 | ENST00000427268.1,ENST00000418244.1,ENST00000431294.1,ENST00000449386.1,NR_121637,NR_121636,NR_121635,NR_121634,gene.v2.1_1002.0_chr1_3.18.ADD,ENST00000426393.1, | gene.v2.1_1000.0_chr4_gene.v2.1_1002.0_chr4_14.818.ADD, | divergent | 0.20 | 0.47 | 0.71 | 0.0 | 1 | 1,2, | 1,2,3, |
| FLJ43663 | NR_015431,uc003vqq.3,ENST00000429901.1,NR_109851,NR_109850,NR_109853,NR_109852,NR_109855,NR_109854,ENST00000423414.1,gene.v2.1_1002.0_chr7_gene.v2.1_1000.0_chr7_1.634.ADD,ENST00000431189.1,ENST00000451786.1,FLJ43663, | nod.primed_gene.v2.1_1775.0_chr6,ENSMUST00000050386,ENSMUST00000115107, | divergent | 0.23 | 0.25 | -1.84 | 0.5 | 3 | 1, | 2, |
| SNHG17 | ENST00000414142.1,uc002xig.3,SNHG17,NR_015366,gene.v2.1_1003.0_chr20_gene.v2.1_1020.0_chr20_86.447.ADD,ENST00000436764.1,NR_027241,ENST00000417578.1, | nod.naive_gene.v2.1_3766.0_chr2,9430008C03Rik,uc012cie.1,NR_015463,NR_027887, | snoRNA host | 0.15 | 0.60 | 0.30 | 0.0 | 5 | 6, | 5,6,7, |
| AK096335 | AK096335,h1.ips_gene.v2.1_2569.0_chr11, | gene.v2.1_1003.0_chr2_gene.v2.1_1000.0_chr2_gene.v2.1_1002.0_chr2_gene.v2.1_1004.0_chr2_17.371.ADD, | intergenic | 0.06 | 0.75 | -2.00 | 0.5 | 1 | 1, | 1, |
| h1.ips_gene.v2.1_1019.0_chr6 | h1.ips_gene.v2.1_1019.0_chr6, | rm1.primed_gene.v2.1_1402.0_chr10, | divergent | 0.37 | 0.37 | - | 0.0 | 0 | 1, | 1, |
| SAP30L-AS1 | SAP30L-AS1,h1.ips_gene.v2.1_1431.0_chr5, | ENSMUST00000152790,ENSMUST00000140069,gene.v2.1_1006.0_chr11_41.74.ADD,uc007jad.1,ENSMUST00000132378,AK007998, | divergent | 0.43 | 0.48 | -0.10 | 0.0 | 1 | 1,2,3,4, | 1,2, |
| SNHG7 | NR_003672,ENST00000436596.1,uc011meb.2,ENST00000416970.1,NR_024543,NR_024542,uc004cim.2,SNHG7,ENST00000414282.1,ENST00000447221.1,h1.ips_gene.v2.1_1479.0_chr9, | ENSMUST00000170093,ENSMUST00000170305,NR_024068,cast.primed_gene.v2.1_2158.0_chr2, | snoRNA host | 0.38 | 0.60 | 0.10 | 1.5 | 3 | 1,2,4, | 1,2,4, |
| LOC100216545 | NR_024586,h1.ips_gene.v2.1_1494.0_chr7,LOC100216545,uc003vck.2, | cast.primed_gene.v2.1_2013.0_chr5,ENSMUST00000101522,NR_040469, | divergent | 0.31 | 0.31 | - | 0.0 | 0 | 1,2,3, | 1, |
| H1FX-AS1 | H1FX-AS1,uc011bkv.1,h1.ips_gene.v2.1_1559.0_chr3,NR_026991, | ENSMUST00000153372,Gm5577,uc012eoq.1,ENSMUST00000143871,NR_026990,cast.primed_gene.v2.1_1863.0_chr6,uc012eop.1,ENSMUST00000134600, | divergent | 0.41 | 0.53 | - | 0.0 | 1 | 1,2, | 1, |
| h1.ips_gene.v2.1_1664.0_chr15 | h1.ips_gene.v2.1_1664.0_chr15, | rm1.primed_gene.v2.1_5077.0_chr2, | intergenic | 0.59 | 0.59 | - | 0.0 | 0 | 1, | 1, |
| h1.ips_gene.v2.1_1874.0_chr6 | h1.ips_gene.v2.1_1874.0_chr6, | rm1.naive_gene.v2.1_1887.0_chr1, | exonic miRNA host | 0.61 | 0.61 | - | 0.0 | 0 | 1, | 1, |
| RMRP | ENST00000363046.1,uc003zxh.2,NR_003051,h1.ips_gene.v2.1_2683.0_chr9,RMRP,ENST00000602361.1, | rm1.naive_gene.v2.1_1380.0_chr4,uc008spx.1,NR_001460,Rmrp,ENSMUST00000157463, | intergenic | 0.80 | 0.80 | - | 0.0 | 0 | 1, | 1, |
| RPPH1 | h1.ips_gene.v2.1_2905.0_chr14,uc001vxa.1,NR_002312,ENST00000516869.1,RPPH1,ENST00000554988.1, | cast.naive_gene.v2.1_1728.0_chr14,NR_002142,ENSMUST00000175096, | intergenic | 0.83 | 0.83 | - | 0.0 | 0 | 1,2, | 1, |
| h1.ips_gene.v2.1_3052.0_chr1 | h1.ips_gene.v2.1_3052.0_chr1, | uc007jef.2,ENSMUST00000145533,4933439C10Rik,ENSMUST00000130570,ENSMUST00000132226,nod.primed_gene.v2.1_4009.0_chr11,NR_015585, | divergent | 0.28 | 0.18 | - | 0.0 | 0 | 1, | 1, |
| MIAT | ENST00000421151.1,NR_003491,MIAT,NR_033321,NR_033320,ENST00000456129.1,h1.ips_gene.v2.1_3084.0_chr22,ENST00000423278.1,uc003adb.2,NR_033319,ENST00000430080.1, | rm1.primed_gene.v2.1_2882.0_chr5,uc008ysk.2,Miat,NR_003718,ENSMUST00000146058,NR_033657, | intergenic | 0.57 | 0.62 | 0.25 | 2.5 | 4 | 1,4,5,6,7, | 1,2,3,4,5, |
| h1.ips_gene.v2.1_3813.0_chr17 | h1.ips_gene.v2.1_3813.0_chr17, | nod.primed_gene.v2.1_1744.0_chr11, | intergenic | 0.76 | 0.76 | - | 0.0 | 0 | 1, | 1, |
| h1.ips_gene.v2.1_4015.0_chr12 | h1.ips_gene.v2.1_4015.0_chr12, | rm1.naive_gene.v2.1_3516.0_chr15, | intergenic | 0.92 | 0.92 | - | 0.0 | 0 | 1, | 1, |
| ENST00000561611.2 | h1.ips_gene.v2.1_4412.0_chr16,ENST00000561611.2, | ENSMUST00000131438,AK083706,ENSMUST00000130937,nod.primed_gene.v2.1_1291.0_chr8,uc009nie.1, | intergenic | 0.48 | 0.01 | - | 0.0 | 0 | 8,9, | 1, |
| h1.ips_gene.v2.1_5152.0_chr2 | h1.ips_gene.v2.1_5152.0_chr2, | rm1.primed_gene.v2.1_2524.0_chr17, | divergent | 0.58 | 0.58 | - | 0.0 | 0 | 1, | 1, |
| ENST00000309033.4 | ENST00000309033.4,h1.ips_gene.v2.1_5659.0_chr2, | cast.primed_gene.v2.1_1977.0_chr12, | divergent | 0.22 | 0.20 | - | 0.0 | 0 | 2, | 1, |
| SCARNA2 | uc001dwo.1,h1.ips_gene.v2.1_7515.0_chr1,ENST00000458748.1,ENST00000602755.1,SCARNA2,NR_003023, | ENSMUST00000157560,rm1.naive_gene.v2.1_2286.0_chr3, | snoRNA host | 0.56 | 0.57 | - | 0.0 | 0 | 1, | 1, |
| BX538249 | h1.naive_gene.v2.1_4026.0_chr1,BX538249, | ENSMUST00000067500,NR_015487_484,uc012cwp.1,A930005H10Rik,NR_015487,NR_027894,NR_027895, | divergent | 0.22 | 0.57 | 0.17 | 0.0 | 1 | 1, | 1, |
| MIR17HG | h1.naive_gene.v2.1_1011.0_chr13,uc010tie.1,NR_027349,NR_027350,ENST00000400282.2,MIR17HG, | uc011zpx.1,NR_029382,Mir17hg,ENSMUST00000134140,gene.v2.1_1000.0_chr14_2.203.ADD, | intronic miRNA host | 0.10 | 0.65 | 0.04 | 0.0 | 1 | 1,2, | 2,4, |
| BC067230 | h1.naive_gene.v2.1_1259.0_chr15,BC067230,ENST00000500949.2,uc001zno.3, | cast.naive_gene.v2.1_1729.0_chr2,ENSMUST00000147425,uc008ltx.2,ENSMUST00000153581,NR_027832,1700020I14Rik,NR_015473, | intergenic | 0.56 | 0.60 | -0.64 | 0.5 | 2 | 3, | 4, |
| LINC00339 | ENST00000434233.1,h1.naive_gene.v2.1_1284.0_chr1,NR_023918,uc001bfm.4,ENST00000420503.1,NR_109759,ENST00000452322.1,ENST00000404210.2,ENST00000416769.1,LINC00339,NR_109762,NR_109761,NR_109760,NR_023919, | rm1.primed_gene.v2.1_2386.0_chr4, | intergenic | 0.05 | 0.69 | - | 0.0 | 0 | 1, | 1, |
| SOCS2-AS1 | ENST00000499137.2,SOCS2-AS1,uc001tcu.3,h1.naive_gene.v2.1_1327.0_chr12,ENST00000500986.1, | uc007gwh.1,ENSMUST00000133183,NR_045339,NR_045338,gene.v2.1_1010.0_chr10_11.44.ADD,AK017586, | divergent | 0.00 | 0.47 | - | 0.0 | 1 | NA | NA |
| TERC | NR_001566,ENST00000363312.1,TERC,uc003ffr.1,ENST00000602385.1,h1.naive_gene.v2.1_1653.0_chr3, | NR_001579,uc008qmy.1,cast.naive_gene.v2.1_1966.0_chr3,Terc,ENSMUST00000082862, | intergenic | 0.69 | 0.69 | - | 0.0 | 0 | 1, | 1, |
| PVT1 | h1.naive_gene.v2.1_1877.0_chr8,ENST00000513868.2,PVT1,uc010mdq.3,ENST00000523427.1,ENST00000504719.2,NR_003367,ENST00000521951.1, | Pvt1,ENSMUST00000100633,rm1.naive_gene.v2.1_3323.0_chr15_gene.v2.1_2820.0_chr15_gene.v2.1_2962.0_chr15,ENSMUST00000171111,NR_003368,uc007vyj.1,ENSMUST00000165627, | intronic miRNA host | 0.07 | 0.09 | -0.89 | 0.5 | 6 | 2, | 2, |
| h1.naive_gene.v2.1_1968.0_chrX | h1.naive_gene.v2.1_1968.0_chrX, | ENSMUST00000146801,ENSMUST00000134672,gene.v2.1_1004.0_chrX_28.735.ADD,NR_033324,BC065397,ENSMUST00000134066,uc009uiy.2,ENSMUST00000145620, | divergent | 0.03 | 0.10 | 0.40 | 0.0 | 2 | 10, | 3, |
| LOC541471 | uc002the.2,ENST00000439362.1,h1.naive_gene.v2.1_2933.0_chr2,LOC541471, | ENSMUST00000143065,Gm14005,NR_028589,cast.primed_gene.v2.1_2243.0_chr2,ENSMUST00000135433,ENSMUST00000151427,NR_028590,uc008mgo.2, | intronic miRNA host | 0.15 | 0.11 | -1.53 | 0.5 | 2 | 1, | 1, |
| NR_026966 | h1.naive_gene.v2.1_3345.0_chr2,ENST00000464747.1,NR_026966,ENST00000397057.2,ENST00000447413.1,ENST00000456746.1,ENST00000430416.1, | ENSMUST00000135682,rm1.primed_gene.v2.1_3098.0_chr2_gene.v2.1_1062.0_chr2, | intronic miRNA host | 0.00 | 0.60 | - | 0.0 | 3 | NA | NA |
| SCARNA17 | h1.oct4_gene.v2.1_1319.0_chr18,NR_003003,SCARNA17,uc002ldy.1, | ENSMUST00000158610,nod.naive_gene.v2.1_1980.0_chr18, | snoRNA host | 0.71 | 0.71 | - | 0.0 | 0 | 1, | 1, |
| SNHG1 | ENST00000537925.1,uc001nvt.3,h1.oct4_gene.v2.1_1371.0_chr11,NR_003098,ENST00000540725.1,ENST00000537869.1,ENST00000539975.1,SNHG1,ENST00000539921.1,ENST00000538654.1, | rm1.naive_gene.v2.1_2619.0_chr19,ENSMUST00000166221,AK036616,ENSMUST00000171670,uc008gml.1,NR_002896, | snoRNA host | 0.43 | 0.60 | 0.38 | 6.0 | 9 | 1,2,5,6,7,8,9,10, | 1,5,6,7,8,9,10, |
| D7Ertd715e | SNURF-SNRPN,D7Ertd715e,h1.oct4_gene.v2.1_1468.0_chr15, | D7Ertd715e,uc009heo.1,rm1.naive_gene.v2.1_4644.0_chr7, | snoRNA host | 0.03 | 0.20 | -0.06 | 0.5 | 2 | 3, | 3, |
| NR_102326 | h1.oct4_gene.v2.1_1647.0_chr6,uc003npx.2,NR_024053,NR_024052,NR_102326, | rm1.primed_gene.v2.1_2598.0_chr17,NR_015618,ENSMUST00000173900,ENSMUST00000174384,A930015D03Rik,uc008cjp.2, | divergent | 0.00 | 0.10 | - | 0.0 | 1 | NA | NA |
| NR_003505 | h1.oct4_gene.v2.1_1819.0_chr20,NR_003505,ENST00000334187.8,ENST00000493688.1,ENST00000497138.1, | ENSMUST00000151763,ENSMUST00000153162,nod.naive_gene.v2.1_3824.0_chr2,uc008odw.2,Ppp4r1l-ps, | divergent | 0.12 | 0.37 | -1.65 | 4.5 | 14 | 3,5,6,7,9,11,12,13,14, | 5,6,8,9,10,11,12,13,14,15, |
| ENST00000564152.1 | ENST00000564152.1,h1.oct4_gene.v2.1_2358.0_chr22, | rm1.naive_gene.v2.1_2648.0_chr15, | divergent | 0.50 | 0.50 | - | 0.0 | 0 | 1, | 1, |
| ENST00000607520.1 | h1.oct4_gene.v2.1_2447.0_chr15,ENST00000607520.1, | AK013794,NR_045299,rm1.naive_gene.v2.1_1159.0_chr7,ENSMUST00000143530,uc009icc.1, | snoRNA host | 0.66 | 0.53 | -0.61 | 0.5 | 2 | 1,2,3,4, | 1,2,3, |
| ENST00000602652.1 | ENST00000602652.1,h1.oct4_gene.v2.1_2599.0_chr9, | rm1.primed_gene.v2.1_1123.0_chr13, | exonic miRNA host | 0.53 | 0.53 | - | 0.0 | 0 | 1, | 1, |
| SNHG5 | ENST00000369605.4,SNHG5,ENST00000425170.1,ENST00000433843.1,ENST00000414002.1,ENST00000431043.1,ENST00000428833.1,h1.oct4_gene.v2.1_2765.0_chr6,ENST00000427501.1,uc003plb.4,NR_003038,ENST00000589187.1,ENST00000453754.1,ENST00000587692.1,ENST00000435947.1,ENST00000420199.1, | gene.v2.1_1000.0_chr9_16.378.ADD,ENSMUST00000169514,AK050253,uc009qyw.1,ENSMUST00000168253,NR_040766, | snoRNA host | 0.31 | 0.62 | -0.23 | 2.0 | 3 | 1,2,3,4, | 1,2,3,5,6, |
| h1.oct4_gene.v2.1_3444.0_chr5 | h1.oct4_gene.v2.1_3444.0_chr5, | rm1.primed_gene.v2.1_1444.0_chr13, | divergent | 0.37 | 0.37 | - | 0.0 | 0 | 1, | 1, |
| RNF149 | RNF149,h1.oct4_gene.v2.1_4708.0_chr2, | gene.v2.1_1001.0_chr1_5.9.ADD,ENSMUST00000146314, | snoRNA host | 0.66 | 0.64 | 0.28 | 1.0 | 1 | 1,2,3, | 1,2, |
| AL831889 | uc001byp.3,ENST00000468598.1,uc001byq.3,AL831889,ENST00000466213.1, | uc008uub.1,ENSMUSG00000085334.1,AK031234,AK019262,NR_045010,ENSMUST00000137457,ENSMUST00000145240,ENSMUST00000137236,ENSMUST00000130659,ENSMUST00000146285,uc008uua.1, | intergenic | 0.63 | 0.59 | -1.28 | 1.5 | 2 | 1,2, | 1,2, |
| BC021024 | uc001exo.3,ENST00000494138.1,ENST00000447795.2,BC021024, | ENSMUSG00000085956.1,ENSMUST00000128160, | divergent | 0.32 | 0.64 | -0.39 | 0.0 | 1 | 1,2, | 1,2, |
| ENST00000369301.3 | uc001laz.3,ENST00000369301.3,ENST00000451472.1, | BC055806,uc008hzd.1, | intergenic | 0.67 | 0.67 | - | 0.0 | 0 | 1, | 1, |
| AK125821 | NR_130990,ENST00000531207.1,uc001oxi.1,AK125821, | ENSMUSG00000086477,ENSMUST00000148776,uc009iks.1,AK052909, | divergent | 0.03 | 0.58 | -0.38 | 0.5 | 3 | 1, | 1, |
| DLEU2 | uc001vdo.1,uc001vdx.3,ENST00000235290.3,ENST00000443587.1,ENST00000433070.2,DLEU2,ENST00000458725.1, | uc007uga.2,NR_028264, | intronic miRNA host | 0.20 | 0.39 | -2.00 | 2.5 | 4 | 1,2,3, | 1,2,3, |
| AL832384 | AL832384,uc003ubq.4, | ENSMUST00000016088,BC026208,uc008zvb.1, | intergenic | 0.64 | 0.64 | - | 0.0 | 0 | 1, | 1, |
| LOC728743 | NR_027237,ENST00000476489.1,uc011kus.2,LOC728743,uc011kut.2,ENST00000498682.1, | NR_027236,ENSMUST00000059908,ENSMUST00000095938,ENSMUST00000154570,uc009bve.2,ENSMUSG00000053297.7_DUP1,AI854703, | intergenic | 0.63 | 0.68 | -0.51 | 2.0 | 2 | 1,2,4, | 1,2,3, |
| uc021rtn.1 | uc021rtn.1, | uc007tjt.1,NR_029384,Otx2os1,NR_029384_2064, | intergenic | 0.20 | 0.07 | -2.66 | 1.0 | 2 | 2, | 2, |
| HOXB-AS3 | ENST00000487849.3,ENST00000467155.2,NR_033204,NR_033201,ENST00000491264.1,uc021tzh.1,ENST00000466037.2,ENST00000494420.1,uc021tzj.1,HOXB-AS3, | ENSMUST00000150698,ENSMUSG00000085645.1,ENSMUST00000140952,uc007lbs.1,AK002860, | intergenic | 0.71 | 0.77 | -2.00 | 1.0 | 1 | 1,2, | 1,2, |
| MALAT1 | NR_002819,ENST00000544868.1,uc010roh.2,ENST00000534336.1,T061257,MALAT1, | ENSMUSG00000092341.1_DUP1,uc008gfj.2,ENSMUST00000173314,NR_002847,ENSMUST00000172812,Malat1, | intergenic | 0.79 | 0.79 | - | 0.0 | 0 | 1, | 1, |
| IPW | h1.oct4_gene.v2.1_1219.0_chr15,uc001yxn.4,IPW,ENST00000549804.2, | cast.primed_gene.v2.1_1373.0_chr7,uc009hem.1,Ipw,NR_015351, | snoRNA host | 0.15 | 0.14 | -1.60 | 0.5 | 5 | 5, | 32, |
| CRNDE | CRNDE,T132760,uc010vhb.3, | uc009mua.1,NR_033641,ENSMUST00000034183,4933436C20Rik,NR_033641_1227, | intergenic | 0.21 | 0.23 | 0.66 | 1.0 | 4 | 1,2,3, | 1,3,5, |
| NEAT1 | ENST00000601801.1,NEAT1,uc010rog.2,NR_131012,NR_028272,ENST00000499732.1,ENST00000501122.2, | ENSMUST00000174829,ENSMUSG00000092274.1_DUP3,NR_003513,ENSMUST00000173672,ENSMUST00000174287,uc012bhe.1,Neat1, | intergenic | 0.69 | 0.69 | - | 0.0 | 0 | 1, | 1, |
| TSIX | TSIX,gene.v2.1_1000.0_chrX_gene.v2.1_1011.0_chrX_7.695.ADD,ENST00000604411.1,NR_003255,uc004ebn.2, | Tsix,uc012hnd.1,NR_002844,nod.naive_gene.v2.1_1320.0_chrX,ENSMUST00000152916, | intergenic | 0.05 | 0.06 | - | 0.0 | 0 | 2,3, | 1, |
| HOTAIRM1 | HOTAIRM1,uc003syg.3,NR_038366,NR_038367, | HOTAIRM1,NR_131181, | intergenic | 0.77 | 0.72 | -0.28 | 0.5 | 1 | 1,2, | 1,3, |
| MEG3 | MEG3,uc010txe.2,NR_002766, | MEG3,uc007par.2, | intronic miRNA host | 0.59 | 0.67 | -0.34 | 4.5 | 7 | 1,2,3,6,8,9,10, | 1,2,3,5,6,7,8, |
| HOTAIR | HOTAIR,NR_003716,uc031qhn.1, | HOTAIR,uc007xwx.1, | intergenic | 0.63 | 0.72 | 0.38 | 1.0 | 1 | 1,2, | 3,4, |
| FENDRR | FENDRR,uc021tmg.1,NR_036444, | uc009nrl.1,FENDRR, | intergenic | 0.02 | 0.42 | -1.22 | 0.5 | 3 | 1, | 1, |
| FIRRE | FIRRE,LOC286467,uc004ewi.3,NR_026975, | FIRRE,uc012hgv.1, | intergenic | 0.04 | 0.33 | -0.37 | 1.5 | 12 | 6,12, | 6,7, |