DIRS-1b_Amnio
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0006272 |
|---|---|
| TE superfamily | DIRS |
| TE class | LTR |
| Species | Amniota |
| Length | 5479 |
| Kimura value | None |
| Tau index | 0.0000 |
| Description | Long Terminal Repeat for an DIRS endogenous retrovirus |
| Comment | 20% subst outside CGs in painted turtle. CDSs with some frameshifts.Probably Amniota-wide |
| Sequence |
TTTCTGCAGCCCAGCGTCTCCCACAATTCTGATACGTATGGGCTATTCCCCTCCTGTCTGCAGTTTCCGGAGGCAGTTCAAAGCTGCAGCACAGCCCGTGCTAGCCACGCCCCCTTCTCCGGCTTGCTGCCAGATCTTCTGCCTCCGCGGCAGCAGTCAAGTGGCGGTTCNCTTTGCTCCCGACCTTTCCTTTNCGNCTTTATTTTTTTAGCCGTTTTTCGGGCAGTAGCGAGCAGCTCTTTCTTTCGTTTTCTCCCTCCTCCTGGACCGGGTATTGAGCAGCGCGGTGGTCGCAGCCACCCGGAGCCNCCGCTGCAGCGCCTCCCTGCCGAGCTCCTCTGCCCCCTTTCAGGCATGGCAGAGCAGCCGCGCAAGCACCGGGCTAAATCCAAACGGTGCTCCGTCTGCGAGGCAGCTTTNACAGGCTCTGCAGAGGGTAAATTATGCCCTGCCTGTTCTCAGCCAGCCGACCCTNGCNCTGCTAGGGCACGGGGCTCTGAGTCGGACAGGCATGTTGGGNCCCCTANCCCCCCAAGAAGCCGCGACTCCACCACAGAAAAGCCCGACCAGGAGACACAGAGCAGAACAGGGAGAGGCTCTAAGGACGAGGAGGACTTCATCCAGCCGGCCCAGGGGGTAAGTCCTGGGGCAACACAGGACCATAAAGATAAGACCCTTNCGGGGCTNCCGGTCCCCCCCCCAAGTCCTGAAATGGGTCCTAAGTCCCTGGGGAGAGAAGCAGGGCTCNTANNCAGCCCCCCTTCCTCCCAGCTTGAGTCAGGGAACTCTGGCAATGAGNCCCCATCCCCCGNCCTGGGGGAGTGGGACCCTGNAGGGGAGGACTCCGAGGGAGAAATTTCTAGAGGGCTCAAGGCCCTGCGCAAGGCNAGCCGCAAAAGACCACGTCCTGGCCACAGCCGGGCGGCGACGCCTGCAAAGCGCGCCAAAAAGCTAAAAAAGTCCAAAAAGAGCAAAAGGGGAAGAAAAAGTACAAAAAGCCCAAAAGGTATTTGTCCTCTGACTCAGACACCTCCTCCTCTACCGAGGAAGGAGAGCTATCAGACTCTGATTCTGAGCAGGACACGGACAAAATGCAACAAAGGTTTTNTTCCCCCTGAGAAGTTTGAAACCGTGTGCAAAAAGGTTGTATCCACGATCCAGATCCAACCTGAGCAGGCCCTCGAGGACAAGCCTCAGAGCAAATACCTCCCTTCCAAATCCTCNCCCGAGGCAGCGATTCCCCTGCACCCATCCTTTGAGGANGTAATCAGGGAGGAGTGGGAATCTCCTGANAAGGGTAAACACATTAACAGGCATGTTCTCAGATTCTACAAGCTGCAAGAGCCAAAGAATGCTCTCACTGATGTGCCTAAGGTCGATGCTGCCGTAGCATCTCTAGCAAAGGATATGGTTATTCCATCCGAAGGGGACTTCTTCCCCAAGGATCCAACGGATAGGAAGGTGGAAGCCACCCTCAGAAGGGACTTCGGTGCTTCCTCAGCCACCCTCAGAGCGTCTCTGGCAGCCACGTGCTTTGCTCGAGCCACAGTGTCCTGGCTGGAGGACTTTAAAGCCCTTAAGGGCAGAGACCAANCCGACTTCAAGTCTATACTTAAGAAAATCTCCCTAGCAACAGCATTCGTGGCAGATGCTTCAATGGATGCTATGAGGTTTTCTGCCAGGGCCATGGCATCCAGCTCAGCGGCCAGGAGACACATATGGCTTCGTCCCTGGAAGGTAGATACTCACTCCAAACAAGTCCTGTGCTCCTCTAAATTCACAGGATCTCTCCTCTTTGGAGAAAAATTGGACAAGATAGTGGCTGAAAACGCTGCCAAACCTAAACAGTCCCTCCCCTCTCCACTTAGTGCTCTAAGAAGGGACTACAAACCCACTNCCAGACAGAGACGCTCCTTTCGTCCATCTTCCTCACAGAGGTTCCAGAGGAAAGATAACAGATATGTCAAGGGAAAACCTTGGAACCGAGGAGCGAGCGGAAAACCTAGAGGTGCTCCCGCAACCTCCAAGAGCCCATTATGACAACGAGCGAATGTGCCTCCGCCCAGACCTGAGCTTGGGAGGCAGGATTTCCCACTTTCCAGATGAATGGTTTGCTTCGACCACAGACAAGCGGGTGCGAGAGANAGCGCGTCAGGGATACTCCCTCGAGCTAAGGGCTCCACCCCATCCCTTCTTCATCCAGTCTCCCGTCACCAGCGACCCCGCCAAGCGCAAGCTNGTCCGGAACGAGATCTCCCATCTCCTGGACATGGGAGCGATAGAAGGAGTTCCCCCAGAAGAAAGGTTCTCAGGGTTTTACTCCATCTTCTTCATTGTTCAGAAGCGCACTGGGGGAGTCAGGGCCATCCTCGACCTCAGAAGGCTCAACAAATNNATGAAGAAAACAAAGTTCCGGATGGNCACCCTAGCNTCGATAGTGACATCCCTGTNTCAAGGGGACTTCCTAACCTCAGTGGATCTGGCAGACGCATACCTCCACGTTCCAATGCGCCCGTGCCACCGCAGGCTTCTGAGATTTGCTTACGGCACGGATCACTACCAGTACCGAACGCTCCCNTTCGGCCTCTCGTCGGCCCCCAGGGTCTTTACGAAGATGCTGGCGGTGATCGTAGCCAGACTCAGGTCCCAGGGTATTCACCTGTACCCCTTTCTGGACGACTTCCTAATCAGAGCCCCGNCCCAGGCCGCGGCACGCAGTGCCACGATCCGGACTCTGGATCNCCTNCAAGCGCATGGCTTCGCAATAACACCAAGAAAAGCTCCCTGATTCCCTCGACAAGNATNATTCACCTGGGAGCGGAGATAGACACTTCGGCGGCANAGATCTACCCATCACTAGACAGATTCCAGAAGATCCAGGATCTGATATCCATGCTGGNCAAGTGCATGAGGCCAACCATAGCTCAGTGTCTCCAGCCACTGGGCCTCCTGGTCTCGCGCATAGGGGTCNCCCCATGGGCGAGGTCACACATCAGGTGCCTCCAGGCCTTTCTTCTGAGAGTATGGGACCATTCCCCGGAGCGAATGCAAGACCAGGTACTGGTCCCGAACCAGGTGCTNGACTCCCTGAGATGGTGGACAGTCCCGGAGAACGTCCGCAGGGGTCTTCCCATATGCCTTCCAGGCCTNCAGGTTCTCACAACAGACGCCAGTCTGAAGGGATGGGGAGCACNTCTGGGACCCAGAACGGCGCAGGGTATCTGGAGCTCCGGGGAAAGGAACCGCAGCATCAATCTCTTGGAGCTCAGAGCTGTCAAACTAGCTCTNCTGAGATTCCAGAGCTACCTAGAGGGCAATCACGTCTTGGTCCAGCCAGACAACACGACCACGGTTGCGTACATAAACAACCAAGGGGGAACAAGGAGCGTAGCTCTACGTGCAGAAGCGATGGAGACAATGGAATGGGCAGACAAGACTCTCCCTTCCCTAAAGGCGATNCACATAAAAGGGGAGCTGAACCAAAAGGCAGACTGGCTCAGCAGACGCAAAGTCAACNACTCGGAATGATGCCTGAACCAGGAAGTCTTCACTCTGATCTCGCAGACGTTCGGTCTCCCCTCAGTCGACCTGTTTGCCAATCGCAAGAATGCAAAACGGCCGAAATNCTTCACCNGGGAAGCAGACCCCAAGTCCATGGGGACAGATGCTCTGTCGCACAGATGGCCNCAAGGCCTGCTATACGCGTTCCCGCCCTTCCCTCTCCTAGGGAAGGTGATCCAAAAGATAAGGCGAGAAGAAGCAAGGGTGATAGTGCTAACTCCGCACCGGCCAAGGAGACCCTGGTTCTCTGATCTGATAGAACTAAAGCTGGAACCACCGTTGCAGCTNCCGGCGAGACCAGACATCCTTTACCAAGGCCCATTCCTCCATCCGGACCCAGACCGTCTTCATCTGACAGCCTGGCTATTGAAAGGGAAGCGTTAGCCGCGCTCGGCCTGTCTTCCAAAGTGATCGGGACTCTGCTCTCNTCCAGGAGAGTTTCCACGCTAAAAGCCTACTCCTCCATCTGGACCAAGTTCAGTNTTTGGTGCCAAGAGCACAGCGCAAATCCAAGGGATCCTGGGATTCCGGCTACTCTGGACTTCCTTCAGGAAGGTGCGGATAAGGGNCTTCAGCCNAGCACCGTAGCGCGCCAGGTGTCAGCCCTCAGTAGTGTACTGTTCGCAGGATCCTCGGGCTCCCTGGCCGAGAACCCTCAGGTATCCAGGTTCCTCAGAGCAGTCAGACTGGCCAGACCAGCGGTCAGACCGATCTTCCCTAAGTGGGACCTACCACTGGTGTTGAAAGCCCTAACCACCCATCCCTTTGAGCCTCTGACNTCTGTATCACCATTTTACCTCTCCATCAAAACCTGTTTTCTGGTGCCATCACGTCCGCCAGTGAGTTTCAGATGGAGCCTTATCCATGCAGGAACCTTACTGCGTGTTCCATGATGCAAGGTGGTGCTAAGACTCCAGAAACGTTCTTGCCTAAGGTGAACTCTCCTTTCCATGCCTCGCAGGAGATTGTCCTCCCTTCATTCTGTCCAAAGCCACAGCACCCGACTGAGAAGCNGTGGCACACCCTGGATGTCAGAAGAGCACTAAAGACTTATATCAAGCGTACAGAATCCACAAGGAGATCGGGCTCCCTGTTCGTTTCCTTTCACCCGAGGTGCCAAGGGCTTAGAGTATCCAAGCTATCCCTTGCCAGATGGATCAGACTATGCATCGTTGAGGCATACAAGCCATCCGGCGCGCCTGTTCCAGAAGGAATCAAGGCGCATTCCACAAGATCCATGGCAACCTCGTGGGCCGAAAGAGCGTGCGCTTCCACCGCAGAGATCTGCAGAGCAGCCACATGGTCATCGGCTAACGCCTCTATCAGACACTATAGGGTGGACTTTCTGTCTTCCGCAGAGGCCTCCTTTGGCAGGAAGGTGCTGCAGGCGGTGGTCCAGTAATAACCTTGCCGTTTGAGCAATTCGAAAGGGAGGGGTTCCTTTCCTGTTTCTTATGTTCGTTCTCCTATCCCTCCCTACTCCTGTTCACTGCTCGCTACTTCCCATACGTATCAGAATTGTGGGAGACGCTGGGCTGCAGAATGGAAAATTTCTTACCCGGTAATTTCCTTTCTGCTAGCAGCATCTCCCACAATTCTACCCACCCTGGACGGCTTCACAGCCGAGGGTCAGCATTTTATTTGGATAGTTACCGTATAGGCAGTGGCCTACTGTACATAGTTANTTGGTTGGCACTGGAATTATTGTTACTAATTATTTTCTACGAGTTTTTNCACAGCTTTGGAATGAATCATCTGGCAGCAAGCNGGAGAAGGGGGCGTGGCTAGCACAGGCTGTGCTGCAGCTTTGAACCGCCTCCGGAAACTGCAGACAGGAGGGGAATAGCCCATACGTATCAGAATTGTGGGAGACGCTGCTAGCAGAAAGGAAATTATCGGGTAAGAAATTTTCCATTCT
|
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 |
|---|---|---|---|---|---|---|
| DIRS-1b_Amnio | EWSR1-FLI1 | 239 | 256 | - | -12.49 | GGAGAAAACGAAAGAAAG |
| DIRS-1b_Amnio | EWSR1-FLI1 | 3752 | 3769 | + | -13.00 | GAGAAGAAGCAAGGGTGA |
| DIRS-1b_Amnio | EWSR1-FLI1 | 4527 | 4544 | - | -15.68 | AGAATGAAGGGAGGACAA |
| DIRS-1b_Amnio | BPC5 | 235 | 264 | - | -22.84 | AGGAGGAGGGAGAAAACGAAAGAAAGAGCT |
| DIRS-1b_Amnio | BPC5 | 570 | 599 | + | -38.28 | GGAGACACAGAGCAGAACAGGGAGAGGCTC |
| DIRS-1b_Amnio | BPC5 | 3741 | 3770 | + | -39.21 | AAAGATAAGGCGAGAAGAAGCAAGGGTGAT |
| DIRS-1b_Amnio | BPC5 | 3743 | 3772 | + | -43.70 | AGATAAGGCGAGAAGAAGCAAGGGTGATAG |
| DIRS-1b_Amnio | BPC5 | 566 | 595 | + | -44.71 | ACCAGGAGACACAGAGCAGAACAGGGAGAG |
| DIRS-1b_Amnio | BPC5 | 964 | 993 | + | -48.13 | AAAAAGAGCAAAAGGGGAAGAAAAAGTACA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
