L1M5_orf2
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000008 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Theria_mammals |
| Length | 3294 |
| Kimura value | 29.26 |
| Tau index | 0.8761 |
| Description | ORF2 from L1 retrotransposon, L1M5_orf2 subfamily |
| Comment | Present in eutherians. |
| Sequence |
ATGGTAGATTTAAACCCAANCATATCAATAATTACATTAAATGTAAATGGNCTAAACACTCCAATTAAAAGGCAGAGATTGTCAGACTGGATAAAAAAACAAGACCCAACTATATGCTGTCTACAAGAGACGCACTTTAAATATAAAGACACAGANAGGTTGAAAGTAAAAGGATGGAAAAAGATATACCATGCAAACACTAANCAAAAGAAAGCTGGNGTGGCTATATTAATATCAGACAAAGTAGACTTCAAGGCAAGAAATATTACCAGAGATAAAGAGGGACATTTCATAATGATAAAAGGGTCAATTCATCAAGAAGACATAACAATCCTAAATGTGTATGCACCTAATAACAGAGCTTCAAAATACATGAAGCAAAAACTGACAGAACTAAAAGGAGAAATAGACAAATCCACAATTATAGTNGGAGATTTTAACACNCCTCTCTCAGTAATTGATAGAACAAGTAGACAAAAAATCAGTAAGGATATAGAAGATTTGAACAACACTATCAACCAACTTGACCTAATTGACATTTATAGAACACTNCACCCAACAACNGCAGAATACACATTCTTTTCAAGTGCACATGGAACATTTACCAAGATAGACCATATNCTGGGCCATAAAACAAGTCTCAATAAATTTNAAAGGATTGAAATCATACAGAGTATGTTCTCTGACCACAATGGAATTAAATTAGAAATCAATAACAAAAAGATANCTAGAAAATCCCCAAATATTTGGAAATTAAACAACACACTTCTAAATAACCCATGGGTCAAAGAAGAAATCACAANGGAAATTAGAAAATATTTTGAACTGAATGANAATGAAAATACAACATATCAAAATTTGTGGGATGCAGCTAAAGCAGTGCTTAGAGGGAAATTTATAGCNTTAAATGCNTATATTAGAAAAGAAGAAAGGCTTAAAATCAATGATCTAAGCTTCCACCTTAAGAAGCTAGAAAAAGAAGAGCAAATTAAACCCAAAGNAAGTAGAAGGAAGGAAATAATAAAGATAAGAGCAGAAATCAATGAAATAGAAAACAAANANACAATAGAGAAAATCAACGAAGCCAAAAGCTGGTTCTTTGAAAAGATCAATAAAATTGATAAACCTCTAGCNAGACTGATCAAGAAAAAAAGAGAGAAGACACAAATTACCAATATCAGGAATGAAAAAGGAGACATCACTACAGATCCTACAGACATTAAAAGGATAATAAGAGAATATTATGAACAACTTTATGCCAATAAATTTGANAACTTAGATGAAATGGACAAATTCCTTGAAAAACACAANTTACCAAAACTGACNCAAGAAGAAATAGAAAATCTGAATAGCCCTATATCTATTAAAGAAATTGAATTTGTAATTAAAAACCTTCCCACAAAGAAAACTCCAGGCCCAGATGGCTTCACTGGTGAATTCTACCAAACATTTAAGGAAGAAATAATACCAATCTTACACAAACTCTTCCAGAAAATAGAAAAAGAGGGAACACTTCCCAACTCATTTTATGAGGCCAGCATNACCCTGATACCAAAACCNGACAAAGACATTACAAGAAAAGAAAATTACAGACCAATATCCCTCATGAACATAGATGCAAAAATCCTNAACAAAATATTAGCAAATCGAATCCAGCAATATATAAAAAGGATAATACATCATGACCAAGTGGGGTTTATCCCAGGAATGCAAGGTTGGTTTAACATTCGAAAATCAATCAATGTAATTCACCATATTAACAGAATAAAGGAGAAAAATCATATGATCATCTCAATAGATGCAGAAAAAGCATTTGACAAAATTCAACACCCATTCATGATAAAAACTCTCAGCAAACTAGGAATAGAAGGGAACTTCCTCAACCTGATAAAGGGCATCTACGAAAAACCTACAGCNAACATCATACTTAATGGTGAAANACTGAANGCTTTCCCCCTAAGATCGGGAACAAGACAAGGATGTCCGCTNTCACCACTTCTATTCAACATTGTACTGGAGGTCCTAGCCAGTGCAATAAGGCAAGAAAAAGAAATAAAAGGCATAAAGATTGGAAAGGAAGAAATAAAACTGTCNTTATTCGCAGATGACATGATTGTNTACGTAGAAAATCCNAAAGAATCTACAAANAAACTACTAGAACTAATAAGTGAATTTAGCAAGGTCGCNGGATACAAGGTCAATATACAAAAATCAATTGTATTTCTATATACTAGCAACAAACAATTGGAAAATGAAATTTNAAAAACAATACCATTTACAATAGCATCAAAAAACATNAAATACTTAGGAATAAATCTAACAAAANATGTGCAAGACCTNTACACTGAAAACTACAAAACATTGCTGAGAGAAATTAAAGAAGACCTAAATAAATGGAGAGATATACCATGTTCATGGATTGGAAGACTCAATATTGTNAAGATGTCAATTCTCCCCAAATTGATCTATAGATTCAATGCAATCCCAATCAAAATCCCAGCAGGTTTTTTTGTAGAAATTGACAAGCTGATTCTAAAATTTATATGGAAATGCAAAGGACCNAGAATAGCCAAAACAATCTTGAAAAAGAAGAACAAAGTTGGAGGACTTACACTACCNGATNTCAAGACTTATTATAAAGCTACAGTAATCAAGACAGTGTGGTATTGGCGTAAGGATAGACAAATAGATCAATGGAACAGAATAGAGAGTCCAGAAATAGACCCACACATATATGGNCANTTGATTTTTGACAAAGGTGCCAANGCAATTCAGTGGGGAAAGGATAGTCTTTTCAACAAATGGTGCTGGAACAATTGGATATCCATATGGAAAAAAATGAANCTCGACCCCTACCTCACACCATACACAAAAATTAATTCNAGATGGATCATAGACCTAAATGTAAAAGNTAAAACTATAAAACTTCTAGAAGAAAACATAGGAGAATATCTTCGTGACCTTGGGNTAGGCAAAGATTTCTTAAACAGGACACAAAAAGCACNAACCATAAAAGAAAAAATTGATAAATTGGACTNCATCAAAATTAAAAACTTCTGCTCNTCAAAAGACACCGTTAAGAAAATGAAAAGGCAAGCCACAGANTGGGAGAAAATATTTGCAANACATATATCTGACAAAGGACTCGTATCCAGAATATATAAAGAACTCCTACAANTCAATAANAAAAAGACAAACAACCCAATANAAAAATGGGCAAAAGACTTGAACAGACACTTCACAAAAGAAGATATNCAAATGGCCAATAAGCACATGAAAAGATGCTCAACNTCA
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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 |
|---|---|---|---|---|---|---|
| L1M5_orf2 | BCL6B | 2016 | 2032 | - | -16.99 | CACTGGCTAGGACCTCC |
| L1M5_orf2 | ZSCAN16 | 348 | 365 | + | -17.70 | ACCTAATAACAGAGCTTC |
| L1M5_orf2 | BPC5 | 259 | 288 | + | -30.68 | AGAAATATTACCAGAGATAAAGAGGGACAT |
| L1M5_orf2 | BPC5 | 382 | 411 | + | -39.26 | AAACTGACAGAACTAAAAGGAGAAATAGAC |
| L1M5_orf2 | BPC5 | 1135 | 1164 | + | -42.56 | AGACTGATCAAGAAAAAAAGAGAGAAGACA |
| L1M5_orf2 | BPC5 | 380 | 409 | + | -43.87 | AAAAACTGACAGAACTAAAAGGAGAAATAG |
| L1M5_orf2 | BPC5 | 263 | 292 | + | -48.99 | ATATTACCAGAGATAAAGAGGGACATTTCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
