L1M1_orf2
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000228 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Haplorrhini |
| Length | 3294 |
| Kimura value | 11.94 |
| Tau index | 0.8801 |
| Description | ORF2 from L1 retrotransposon, L1M1_orf2 subfamily |
| Comment | ORF2 from L1M1-like LINEs. |
| Sequence |
ATGGCAGGAGTAAGTCCTTACTTATCAATAATAACATTGAATGTAAATGGACTAAACTCTCCAATCAAAAGACATAGAGTGGCTGAATGGATGAAAAAACAAGACCCANTGATCTGTTGCCTACAAGAAACACACTTCACCTATAAAGACACACATAGACTGAAAATAAAGGGATGGAAAAAGATATTCCATGCCAATGGAAACCAAAAAAGAGCAGGAGTAGCTATACTTATATCAGACAAAATAGATTTCAAGACAAAAACTATAAGAAGAGACAAAGAAGGTCACTATATAATGATAAAGGGGTCAATTCAGCAAGAGGATATAACAATTNTAAATATATATGCACCCAACACTGGAGCACCCAGATATATAAAGCAAATATTATTAGAGCTAAAGAGAGAGATAGACCCCAATACAATAATAGCTGGAGACTTCAACACCCCACTTTCAGCATTGGACAGATCTTCCAGACAGAAAATCAACAAAGAAACATCGGACTTAATCTGCACTATAGACCAAATGGACCTAATAGATATTTACAGAACATTTCATCCAACGGCTGCAGAATACACATTCTTTTCCTCAGCACATGGATCATTCTCAAGGATAGACCATATGTTAGGTCACAAAACAAGTCTTAAAACATTCAAAAAAATTGAAATAATATCAAGCATCTTCTCTGACCACAATGGAATAAAACTAGAAATCAATAACAAGAGGAATTTTGGAAACTATACAAACACATGGAAATTAAACAATATGCTCCTGAATGACCAGTGGGTCAATGAAGAAATTAAGAAGGAAATTGAAAAATTTCTTGAAACAAATGATAATGGAAACACAACATACCAAAACCTATGGGATACAGCAAAAGCAGTACTAAGAGGGAAGTTTATAGCTATAAGTGCCTACATCAAAAAAGAAGAAAAACTTCAAATAAACAACCTAACGATGCATCTTAAAGAACTAGAAAAGCAAGAGCAAACCAAACCCAAAATTAGTAGAAGAAAAGAAATAATAAAGATCAGAGCAGAAATAAATGAAATTGAAATGAAGAAAACAATACAAAAGATCAATGAAACAAAAAGTTGGTTTTTTGAAAAGNTAAACAAAATTGACAAACCTTTAGCCAGACTAANNAAGAAAAAAAGAGAGAAGACCCAAATAAATAAAATCAGAGATGAAAAAGGAGACATTACAACTGATACCGCAGAAATTCAAAGGATCATTAGTGGCTACTATGAGCAACTATATGCCAATAAATTGGAAAATCTAGAAGAAATGGACAAATTCCTAGACACATACAACCTACCAAGATTGAACCATGAAGAAATCCAAAACCTGAACAGACCAATAACAAGTAACGAGATCGAAGCCGTAATAAAAAGTCTCCCAGTAAAGAAAAGCCCGGGACCCGATGGCTTCACTGCTGAATTCTACCAAACATTTAAAGAAGAACTAATACCAATCCTACTCAAACTATTCCGAAAAATAGAGGAGGAGGGAATACTTCCAAACTCATTCTACGAGGCCAGTATTACCCTGATACCAAAACCAGACAAAGACACATCAAAAAAAGAAAACTACAGGCCAATATCTCTGATGAATATTGATGCAAAAATCCTCAACAAAATACTAGCAAACCGAATTCAACAATACATTAAAAAGATCATTCATCATGACCAAGTGGGATTTATCCCNGGGATGCAAGGATGGTTCAACATACGCAAATCAATCAATGTGATACATCATATCAACAGAATGAAGGACAAAAACCATATGATCATTTCAATTGATGCTGAAAAAGCATTTGATAAAATTCAACATCCCTTCATGATAAAAACCCTCAAAAAACTGGGTATAGAAGGAACATACCTCAACATAATAAAAGCCATATACGACAGACCCACAGCTAGTATCATACTGAATGGGGAAAAACTGAAAGCCTTTCCTCTAAGATCTGGAACACGACAAGGATGCCCACTTTCACCACTGTTATTCAACATAGTACTGGAAGTCCTAGCTAGAGCAATCAGACAAGAGAAAGAAATAAAGGGCATCCAAATTGGAAAGGAAGAAGTCAAATTATCCTTGTTTGCAGATGATATGATCTTATATTTGGAAAAACCTAAAGACTCCACNAAAAAACTATTAGAACTGATAAACAAATTCAGTAAAGTTGCAGGATACAAAATCAACATACAAAAATCAGTAGCATTTCTATATGCCAACAGTGAACAATCTGAAAAAGAAATCAAAAAAGTAATCCCATTTACAATAGCCACAAATAAAATTAAATACCTAGGAATTAACTTAACCAAAGAAGTGAAAGATCTCTACAATGAAAACTATAAAACACTGATGAAAGAAATTGAAGAGGACACCAAAAAATGGAAAGATATTCCATGTTCATGGATTGGAAGAATCAATATTGTTAAAATGTCCATACTACCCAAAGCAATCTACAGATTCAATGCAATCCCTATCAAAATACCAATGACATTCTTCACAGAAATAGAAAAAACAATCCTAAAATTTATATGGAACCACAAAAGACCCAGAATAGCCAAAGCTATCCTGAGCAAAAAGAACAAAACTGGAGGAATCACATTACCTGACTTCAAATTATACTACAGAGCTATAGTAACCAAAACAGCATGGTACTGGCATAAAAACAGACACATAGACCAATGGAACAGAATAGAGAACCCAGAAACAAATCCACACACCTACAGTGAACTCATTTTCGACAAAGGTGCCAAGAACATACACTGGGGAAAAGACAGTCTCTTCAATAAATGGTGCTGGGAAAACTGGATATCCATATGCAGAAGAATGAAACTAGACCCCTATCTCTCGCCATATACAAAAATCAAATCAAAATGGATTAAAGACTTAAATCTAAGACCTCAAACTATGAAACTACTACAAGAAAACATTGGGGAAACTCTCCAGGACATTGGTCTGGGCAAAGATTTCTTGAGTAATACCCCACAAGCACAGGCAACCAAAGCAAAAATGGACAAATGGGATCACATCAAGTTAAAAAGCTTCTGCACAGCAAAGGAAACAATCAACAAAGTGAAGAGACAACCCACAGAATGGGAGAAAATATTTGCAAACTACCCATCTGACAAGGGATTAATAACCAGAATATATAAGGAGCTCAAACAACTCTATAGGAAAAAATCTAATAATCCGATTAAAAAATGGGCAAAAGATCTGAATAGACATTTCTCAAAAGAAGACATACAAATGGCAAACAGGCATATGAAAAGGTGCTCAACATCA
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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 |
|---|---|---|---|---|---|---|
| L1M1_orf2 | AGL27 | 2512 | 2525 | - | 15.64 | TTTTCTATTTCTGT |
| L1M1_orf2 | ci | 3091 | 3101 | + | 15.64 | AGACAACCCAC |
| L1M1_orf2 | Trl | 397 | 405 | + | 15.63 | AAGAGAGAG |
| L1M1_orf2 | IRF5 | 1546 | 1559 | + | 15.50 | CTGATACCAAAACC |
| L1M1_orf2 | ONECUT1 | 707 | 715 | + | 15.50 | AAATCAATA |
| L1M1_orf2 | STB3 | 808 | 818 | - | 15.48 | AATTTTTCAAT |
| L1M1_orf2 | BHLHE22 | 614 | 623 | - | 15.46 | AACATATGGT |
| L1M1_orf2 | BHLHE22 | 614 | 623 | + | 15.44 | ACCATATGTT |
| L1M1_orf2 | OLIG2 | 614 | 623 | - | 15.43 | AACATATGGT |
| L1M1_orf2 | BHLHE23 | 614 | 623 | + | 15.40 | ACCATATGTT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
