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
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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 |
|---|---|---|---|---|---|---|
| DIRS-1b_Amnio | KLF13 | 103 | 119 | + | 21.60 | AGCCACGCCCCCTTCTC |
| DIRS-1b_Amnio | KLF13 | 5331 | 5347 | - | 21.60 | AGCCACGCCCCCTTCTC |
| DIRS-1b_Amnio | CG3065 | 104 | 114 | + | 20.72 | GCCACGCCCCC |
| DIRS-1b_Amnio | CG3065 | 5336 | 5346 | - | 20.72 | GCCACGCCCCC |
| DIRS-1b_Amnio | ZNF75D | 2084 | 2095 | - | 19.91 | GTGGGAAATCCT |
| DIRS-1b_Amnio | SP3 | 104 | 114 | + | 19.87 | GCCACGCCCCC |
| DIRS-1b_Amnio | SP3 | 5336 | 5346 | - | 19.87 | GCCACGCCCCC |
| DIRS-1b_Amnio | KLF16 | 104 | 114 | + | 19.28 | GCCACGCCCCC |
| DIRS-1b_Amnio | KLF16 | 5336 | 5346 | - | 19.28 | GCCACGCCCCC |
| DIRS-1b_Amnio | ZNF454 | 866 | 882 | + | 18.50 | GGCTCAAGGCCCTGCGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
