L1MC4a_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000279 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Eutheria |
| Length | 2629 |
| Kimura value | 23.95 |
| Tau index | 0.8175 |
| Description | 3' end of L1 retrotransposon, L1MC4a_3end subfamily |
| Comment | - |
| Sequence |
CTAATATCCCTAATATATAAAGAACTCTTAAAANTNGAAAGNAAAAGACCAAAAACCCGATAGAAAAATGGGCAAAAGACATGAACAGACAATTCACAAAAAGANATANAAATGGCCCTTAAACATATGAAAAGATGTTCAACCTCACTCATAATAAGAGAAATGCAAATTAAAACTACACTGAGATACCATTTCTCACCTATCAGATTGGCAAAAATTCAAAAGTTTGACAACACACTCTGTTGGCGAGGCTGTGGGGAAACAGGCACTCTCATACATTGCTGGTGGGAATGCAAANTGGTACAACCCTTNTGGAGGGGAATTTGGCAATATCTAACAAAACTACATATGCATTTACCCTTTGACCCAGCAATCCCACTTCTAGGAATTTACCCTGAAGATACACCTCCAACATGTACAAAATNACATATGCACAAGGTTATTCATTGCAGCATTGTTTGTAATTGCAAAATATTGGAAACAACCTAAATGCCCATNNATAGGAGANTGGTTGAATAAACTATGGTACATCCACACAATGGAGTACTATGCAGCTGTAAAAAAGAATGAGGAAGATCTCTATGAACTGATATGGAGTGATTTCCAGGATATATTGTTAAGTGAAAAAAGCAAAGTGCAAAAGAGTATNTATAGTATGCTACCTTTCGTGTAAGAAAGAAGGGAAAATAAGAAAATATACATGTATCTGCTCATTTGTGCAAAAAGAAACACAGGAAGGATAAACCAGAAACTAATGAGATTGGTTACCTACAGGGGGTGGGTGGGAATGGGGAGAAAGAATGGGGGATGGGAACGGGATGGNAGGGATGAGGAGGGAGTGACACTTCTCTGAGTATACCTTTTTGTATAGTTCTGACTTTTAGAACCATGNTAATGTTTCACATACCTCAAAAATAAATAATTAAAATCAACCAGGATGTGGGGGGAACCCAAAATGGAATACAAACAGNAACAAATGAACCTAACTGTATTNCAAATGAATAACATAACCACACTGAAGGGGATGGGGAAGAAAAGAACTAACCTAAGTAACTTTGGAAAACAGTATTTTGACTGNATACTGTAAGGCTAAAGACAAAAAGAACTGTACACAAATACTGTACTCTAGTTAGTAAATTTGTTTCTCACAGGGGTATGGGTTAGCAATTCTGAAACTACTTTATGTGTATNCTAGGATTGAACAAATAAGTAAATATATTGTAGATAATGAGAGCCAGGTTTCTCACTGTCGGAGAAAGAAGTTACAAATAAGGAAAGGGGGAAGGCTAGAATGAACCCTGTGGTGTTGGATTGGAATCGGAGGTATCAGTATGAACTCATGGTTTTTAACATATATACAGATAGATAGATACAGAAATAAGATATAGATGTATGTGTATGCATGGGTTAGTATACATACATATATTTCCTAGCTCTGTCCGCTGAGAGGGCCTAGAAGCAATGACACCCCAGTAGCAATGAGCACACCTAGCGCCCAGATCTTGGTTTCTAAATACCATTCTCCAATAAAAGGAACCAGGGCTCCTTGGAGAAATGGCTGATTCCAGGGCTGGGGCAGGGAAAATACAAGATGAGCCTGGAACATCTTGTGGTGCCAGAAAGTAAGGAAGTGCTCAAAAAANGATGGGGGCATGTCAAAAGGACACAGGAGCCAACCTGAAGGAGCTCCCAATGGCCAAANCTGGAACAATTTGAGCAACAAAATAAATAATGATAGTANTGGATTATAACCCATAGAATAAAATAAATATCCATGAGTCCATACTGATATAAATAAATAATTGAATAAATAAATAAATGGGGGAGAAGGGACAGCTCTTCCTTACAGNAGAATTCCAATTAATAAATGTAGAAGGAATGANGGAAATAGAAAATCACCATTAGGCAAACACCACAGTAATAATTGTTGCAGGCAAGATCCACCGATGGATGCTAAAATTAGTGGGCGAAAGTTTGAGGAGAAACAGGATATTTGCATAGTCTCAAAGTATCTCCCCCAAGATATTTATTAATTACAAAGGGAAAAATAGTAACTTTACAGTGGAGAAACCCGGCAGACACCACCTTAACCAAGTGATCAAGGTTAACATCACCAGTAATAAGACATATCGACATCATGTACCCCCTGATATGATGCACTGAGAAGGGCACAACATCACTTCTGTGGTATTCTTGCCAAAAATGCATAACCTCAATCTAATCATGAGAAAACATCAGACAAACCCAAATTGAGGGACATTCTACAAAATAACTGACCAGTACTCTTCAAAAGTGTCAAGGTCATGAAAGACAAGGAAAGACTGAGGAACTGTCACAGATTGGAGGAGACTAAGGAGACATGACAACTAAATGCAATGTGGGATCCTGGATTGGATCCTGGAACAGAAAAAAGGACATTAGTGGAAAAACTGGTGAAATTCGAATAAGGTCTGTAGTTTAGTTAATAGTATTGTACCAATGTTAATTTCCTGGTTTTGATAATTGTACTATGGTTATGTAAGATGTTAACATTAGGGGAAGCTGGGTGAAGGGTATACGGGAACTCTCTGTACTATTTTTGCAACTTTTCTGTAAGTCTAAAATTATTTCAAAATAAAAAGTTAAAAAA
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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 |
|---|---|---|---|---|---|---|
| L1MC4a_3end | FOXB1 | 1207 | 1217 | + | 15.15 | TAAGTAAATAT |
| L1MC4a_3end | squamosa | 1265 | 1277 | + | 15.14 | ACAAATAAGGAAA |
| L1MC4a_3end | fkh | 1902 | 1912 | - | 15.10 | TGTTTGCCTAA |
| L1MC4a_3end | FLC | 1265 | 1278 | + | 15.07 | ACAAATAAGGAAAG |
| L1MC4a_3end | WRKY1 | 362 | 371 | + | 15.04 | TTGACCCAGC |
| L1MC4a_3end | ceh-38 | 911 | 924 | + | 15.00 | AAAAATAAATAATT |
| L1MC4a_3end | Nr2f6 | 356 | 368 | - | 14.99 | GGGTCAAAGGGTA |
| L1MC4a_3end | POU2F1 | 1992 | 2000 | - | 14.94 | TATGCAAAT |
| L1MC4a_3end | STAT1 | 380 | 388 | + | 14.93 | TTCTAGGAA |
| L1MC4a_3end | RVE7 | 2021 | 2029 | - | 14.89 | TAAATATCT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
