L1MC4_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000010 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Eutheria |
| Length | 2789 |
| Kimura value | 25.26 |
| Tau index | 0.7597 |
| Description | 3' end of L1 retrotransposon, L1MC4_3end subfamily |
| Comment | - |
| Sequence |
CTTGTATCCAGAATATATAAAGAACTCTTAAAACTCAACAATAAAAAAACAAACAACCCAATTAAAAAATGGGCAAAAGATTTGAACAGACATTTCACCAAAGAAGATATACAGATGGCAAATAAGCACATGAAAAGATGCTCAACATCATTNGTCATTAGGGAAATGCAAATTAAAACCACAATGAGATACCACTACACACCTATTAGAATGGCTAAAATCAAAAANACTGACAATACCAAATGCTGGCGAGGATGTGGAGCAACNGGAACTCTCATACATTGCTGGTGGGAATGCAAAATGGTACAGCCACTTTGGAAAACAGTTTGGCAGTTTCTTANAAAGCTAAACATACANTTACCATATGACCCAGCAATCNCACTCCTAGGTATTTACCCAAGNGAANTGAAAACNTATGTCCACACAAAAACCTGTACACGAATGTTTATAGCAGCTTTATTCATAATNGCCAAAANCTGGAAACAACCNAGATGTCCTTCAACAGGTGAATGGATAAACAAACTGTGGTACATCCATACAATGGAATACTACTCAGCGATAAAAAGGAATGAACTACTGATNCACGCAANAACATGGATGAATCTTAAATGCATNTTGCTAAGTGAAAGAAGCCAGNCNNAAAAGGCTACATACTGTATGATTCCATTTATATGACATTCTGGAAAAGGCAAAACTATAGAGACGGAAAACAGATCAGTGGTTGCCAGGGGTTGGGAGATGGGAAGNGGGGATGACTGCAAAGGNGAAGCACAGGGGATTTTTTAGGGTGATGAAACTATTCTGTATNAANTNNTCTGTATGATACTGTGGTGGTGGATACACGACNCTATGCATTTGTCAAAACCCATAGAACTTGTNANNANCCACAGANNTNTACAGCACAAAGAGTGAACTTTAATGTATGCAAATTTTAAAAAATCANTTAGGAGGTCGGGGGATCCCAGGATGGAATGCAGACTGTGACAAANGAATCTAACTGTATTACAAATGNATGANACAACCNCACTGAAGGGGATGGGGGAAAAAGGNGCTGACCTAAGTAACTTTGGAAATGAGTGGANNCTGTAAGGCTAAAGACAAAAAGAACTGTAAACAAACATTGAACTCTAGTTAGTAGGTTTGTTTTTCGCAGNGGTATGGGTTAGCAATTCTGAAACTACTTTCTGTACATNTTATACATTCTAGGATTGAGCAAATAAGTAAATATATTGNGGATAATGGGAGCCAGGTTTCTCACTGTCGGAGAAGGGAGTTACAAATATGGAAAGGGGGAAGGCTAGAATGAACCCTGTGGTGTTGGATTGGAATTGGAGGTATCGGTATGAACTCATGGTTTTTAATATATATGNATATACAGACGGACAGATATAGAAATAGATATAGATATATATGTGTNTGTGTATATGTGTATGTATATACGTACATATATTTCCTAGCTCTGTCCGCTGAGAGGGCCTAGAAGCAATGACACCCCAGTAGCAATGAGCACACCTAGCGCCCAGATCTTGGTTTCTAAATACCATTCTCCACTAAAAGGAACCAGGGCTCCTTGGAGAAATGGCTGATTCCAGGGCTGGGGCAGGGAAAGTACAAGATGAGCCTGGAACATCTTGTTGTGCCAGAAAGTAAGGAAGTGCTCAAAGAATGATGGGGACATGTCAAAAGGACACAGGAGCCAGCTTGAAGGGGCTCCCACTGGCCAAATCTGGGACAATTTGAGCATCAAAATAAATAATGATAGTAATGGATTATAACCCATTGAATAAAATAAGAATCCATGAGTCCATACTGATATAAATAAATAAATAAATAAATGGGGGAGAAGGGAAAGCTCTTCCTTACAGTAGAATGCCAACTAATAAATGTAGAAGGAATGATGGAATTAGAAAAATCACCATTTGGCAACCATCATAGTAATAATTGATTCAGGCAAGAATCATCAATGGATGCTAAAACTAGTGGGTGAAAGTTTGATGAGGAACAGGATATTTACATAGTCTCAAAGTATCTCCCCACAAANTACTTATTAATTACAAAGGGGAAAATAGTAACTTTACAGTGGAGAAACCTGGCAGACACCACCTTAACCAAGTGATCAAAGTTAACATCACCAGTAATGGGACAAATCGACATCATGTGCCTCCTGATATGATGCACTGAGAAGGACACAGCATCACTTCTGTGGTATTCCTGCCAAAAATGCATAACCTGAATCTAATCATGAGGAAACATCAGACAAACCCAAATTGAGGGACATTCTACAAAATAACTGGCCTGTACTCTTCAAAAATGTCAANGTCATGAAAGACAAAGAAAGACTGAGGAACTGTTCCAGATTAAAGGAGACTAAAGAGACATGACAACTAAATGCAACGCGTGATCCTGGATTGGATCCTGGACCAGANNNNNNNTTTGCTATAAAGGACATTATTGGGACAATTGGCGAAATTTGAATANGGTCTGTAGATTAGATAATAGTATTGTATCAATGTTAATTTCCTGATTTTGATAATTGTACTGTGGTTATGTAAGAGAATGTCCTTGTTCTTAGGAAATACACACTGAAGTATTTAGGGGTAAAGGGGCATNATGTCTGCAACTTACTCTCAAATGGTTCAGAAAAAAAAATATGTATATGCANANAGAGAATGATAAAGCAAATGTGGCAAAATGTTAACANTTGGNGAATCTGGGTGAAGGGTATACGGGAGTTCTTTGTACTATTCTTGCAACTTTTCTGTAAGTTTGAAATTATTTCAAAATAAAAA
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TF motifs of the concenus sequence
Use FIMO to detect transcription factor motifs in the concenus sequence of the TE family.
| TE_family | TFBS | Start | End | Strand | Score | Matched sequence |
|---|---|---|---|---|---|---|
| L1MC4_3end | odd | 1493 | 1503 | + | 16.53 | CCCAGTAGCAA |
| L1MC4_3end | FOXB1 | 2007 | 2017 | - | 16.46 | TATGTAAATAT |
| L1MC4_3end | F10B5.3 | 677 | 687 | - | 16.35 | TTTTCCAGAAT |
| L1MC4_3end | SCRT2 | 499 | 508 | + | 16.28 | TCAACAGGTG |
| L1MC4_3end | FLC | 1276 | 1289 | + | 16.21 | ACAAATATGGAAAG |
| L1MC4_3end | AGL27 | 1276 | 1289 | - | 16.18 | CTTTCCATATTTGT |
| L1MC4_3end | SOC1 | 1276 | 1288 | - | 16.11 | TTTCCATATTTGT |
| L1MC4_3end | ZIPIC | 1589 | 1598 | - | 16.07 | CCAGCCCTGG |
| L1MC4_3end | Msgn1 | 1915 | 1924 | - | 15.97 | GCCAAATGGT |
| L1MC4_3end | AP1 | 1276 | 1288 | + | 15.89 | ACAAATATGGAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
