L1M1_orf2
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000228 |
|---|---|
| TE superfamily | L1 |
| TE order | 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
|
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 | PI | 1573 | 1586 | + | 15.23 | TCAAAAAAAGAAAA |
| L1M1_orf2 | blmp-1 | 1150 | 1160 | + | 15.18 | AAAAGAGAGAA |
| L1M1_orf2 | PI | 2512 | 2525 | + | 15.18 | ACAGAAATAGAAAA |
| L1M1_orf2 | PI | 919 | 932 | + | 15.18 | AAAAAAGAAGAAAA |
| L1M1_orf2 | BHLHA15 | 614 | 623 | + | 15.14 | ACCATATGTT |
| L1M1_orf2 | BHLHA15 | 614 | 623 | - | 15.12 | AACATATGGT |
| L1M1_orf2 | OLIG3 | 614 | 623 | + | 15.12 | ACCATATGTT |
| L1M1_orf2 | FLC | 2512 | 2525 | + | 15.07 | ACAGAAATAGAAAA |
| L1M1_orf2 | ttk | 2088 | 2096 | - | 14.97 | AAGGATAAT |
| L1M1_orf2 | SOC1 | 2388 | 2400 | - | 14.90 | TTTCCATTTTTTG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
