DIRS-1a_Amnio
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0006271 |
|---|---|
| TE superfamily | DIRS |
| TE class | LTR |
| Species | Amniota |
| Length | 5475 |
| Kimura value | 24.05 |
| Tau index | 0.0000 |
| Description | Long Terminal Repeat for an DIRS endogenous retrovirus |
| Comment | 20% subst outside CGs in painted turtle. Probably Amniota-wide |
| Sequence |
TTTCTGTTGCACAGCTTCTCTCCTCATTCGTTACTNATGGGCTAATGCCCCCCGCCTGCGGAATTCGGAGGCAGTCCAGTGTTGTTGCTGGAGCCCGNGCTGGCCACGCCCCCTTCTTCAGCTCGCCGCCAGATTTTCTGCCTCCGCGGCGGAACAAGTTGGCGGTTCAGTTTGCTCCCGACCATTTCGTTTTCAACTTTTATTTTTATTCATTTTTGNGCAGTAGCGAGCAACTTNTTCTTCCCCTCTTCCTCCTCCTCCCTGGATCGGTTAGCAGCGTGGTGGTTTCAGCCACCCGGATCCGCCGCTGCAGCGCCTCCCTGCCGGACTCCTCTGCCCCCGCTCAGGCATGGCAGAGCTGTCCCGCAAACACCGGGCTAAATCTAAGCGGTGTTCCCTATGTGAGGCAGCATTTACAGGCTCTNCAGAGGGCGAATTATGCCCTGCCTGTTCNCAGCCAGCCGACCCTCGCACTGCCAGGGCACGGGGCTCAGAGTCGGACCGGCATGTCGGGTCCCCACCCTGCCCCGAGGAGCCGCGACTCCAACGCAGAAAAGCCCGATCAGGAGCTTCTGAGCATTCGGGGAGAGAGTCTAAGGACGAGGAGGACGCTATCCGGCCAGCTCAGGGGGTAAGTCCCGCAACAGACCCGGGCCGGAGGGAAAAAACCCTTAAAGGACCCAAAGTCCCCCCCCCAGATACTGAAGTGGGTCCTCAGCTCCCTGGGGAAAGAAGCAGGGCTCCTACACAGCTCCCCTTCCTCCCANCGCGAATCGGGGGATTCTCGCGATGAGACCCCATCCCCCAGGCAGGGGGAGTGGGACCCCGAGGGGGAGGACACNGAGGGAGACATATCCAGAGGGCTCAAGGCGCTGNATAAAGAGCCGCAAGAGACCNCGCCCTGGCCACAGCCGGGCGGCAACNCCTGCAAAGCGGGCGAAAAGGGCCAAAAAACCAAAAAGAACAAAAGGGAAAGAAAAAATATAAAAAATCTAAGAGGTATTCGTCCTCTGACTCAGACACCTCCTCCTCTACTGAGGAAGGGGAGCTCTCAGATTCAGGCTCTGAGCAGGACATGGAAAAAATGCAGCAAAGGTTTCTTCCCCCTGANANATTTGAAACCATGTGCAGAAAGGTTGCATCCGCNATCCAGATCCAACCNGAGCAGGCACNNGAGGACAAGCCTAAGGGCAAATACCTGCCTTCCAAATCCTCGCCTGAGACAGCAATCCCGCTGCACCCATCCTTTGAGGATGTGATCAGGGAGGAATGGGAAANCCCTGACAAGGGTAAGCGCATAAGCAGGCATGCACTTAGATACTACAAGNTGCAAGAGCCAAAAAATGCCATCACAGANATACCAAAGGTCGATGCTGCGGTGGCATCTCTAGCAAAAGATATGGTAATCCCATCCGAAGGGGATTTCTTTCCCAAAGATNCAACTGATAGAAAGGTGGAAGCCACCCTAGAAGGGACTTTGAGGCTTCGTCGGCCGCCCTTAGAGCGTCCCTGGCCGCTACATGCTTCGCAAGAGCCACAGTGTCCTGGCTGGATGACCTTAAGGCCGTGAAGGACAGGGACCATCCTGACTTCCGGTCTACNCTTAAGAAAATNTCCCTAGCAACAGCCTTTGTGGCAGATGCCTCAATGGATGCAATGAGATTCTCAGCCAGGGCCATGGCATCCAGCTCAGCAGCCAGGCGCCACATCTGGCTNCGCCCCTGGAAGGCNGACGCTCACTCCAAACAAATCCTGTGCTCATCTAAATTCACAGGCTCTCTCCTNTTTGGGGAAAAACTGGATAAGATAGTGGCAGANAGCGCTGCCAAACCGAAACAGTCCCTCCCCTCCCCACNCAGTGCTCTGAGGAGGGACTACAAGCCCAGCAACAGACAGAAACGCTCCTTTCGTCCATCCTCCTCACAAAAGTACCAGAGGAAAGACAGCAGGTATATCAGGGGAAAACCCTGGAACCGNGGATCGGGTGGAAAATCCAGAGGTGGNNCCGCCGCCTCTAAGAGCCCACTATGACAACGAACGAATGTGCCTCCGCCCAGACCTGAATCTAGGAGGCAGAATTTCCCACTTCTCAGAAGAATGGTCTCNATCGACCACAGACAAGTGGGTGAGAGAGGTAGTGAGTTGCGGATACTCCCTCGAACTAAGGGCCCCACCCCATCCCTTCTTCATCCAATCCCCCATCTCGAGCGACCCCATCAAACGCGAGCTGGTGTTAAACGAAATCTCGCATCTCCTGGACATAGGAGCAATAGAAAGGGTTCCCTCAGAAGAAAGGTTCTTAGGACTATACTCCATTTTCTTCATCGTCCAGAAGCGTACGGGGGGAGTCAGAGCCGTCCTGGATCTCAAGCGGCTCAACAAATGGATGAAGAAAACGAGATTCCGGATGGAGACCCTAGCTTCGACGGTAGCATCCCTGTCCCAAGGGGACTTCCTCGCTTCTGTGGACCTAGCAGATGCATATCTCCACATTCCCATACGACCATGCCACCGCAGACTGCTGAGATTTGCGTACGGCACGGCCCACTACCAGTACCAAACGCTNCCATTTGGCCTTTCGTCNGCCCCCAGGGTCTTTACCAAGATGCTGGTGGTAGTNATAGCCAGACTCAGGTCTCAGGGCACTCACCTGTATCCCTTCCTAGACGACATCTTGATCAGAGCTCCGACCCAAGNAGCAGCACGCAGTGCCACAATCCGGACGCTGGANCTGCTTCAAGCACACGGNTTCGTGATAAACACCAAGAAGAGCTCCTTGATTCCCTCCGCAAAGATAGTTCACCTGGGAGTGGAAATAGACACNTCTGTGGCAAAGGTCTACCCATCACTGGACAGATTCCANAAGATCCAGAACCTGATATCCATGTTGGTAAGGTGCGCAAGGCCGNCCATAGCTCAGTGTCTNCAGCTACTGGGCCTCCTGGTTTCGTGTATAGGAATCACCCCATGGGCGAGGTCCCATATCAGGTGCCTCCAGGNNTTTCTCCTGAAAGTATGGAACCATTCACCGGAACGCATGCAAGATCAGGTGCCGGTCCCGAACCAGGTNCTGGACTCCCTNAGATGGTGGACAATCCCANAGAACGTCCGCAAGGGTCTTCCCATATGCCTTCCAGACCCACAGGTACTCACAACNGATGCCAGCCTGACGGGATGGGGAGCGCATCTGGGGCACAGGACAGCGCAAGGCACCTGGAACTCCAGGGAAAGGAACCAGAGCATCAACCTNTTGGAGCTCAGAGCTGTCAAGCTAGCCCTACGAAGGTTCCAGAGCCACCTAGAGGGCGANCACGTTCTGGTCCAGTCGGACAACACGACCACTGTGGCGTATNTCAACAACCAAGGGGGAACNNGGAGCGTAACTCTACACGCAGAAGCGATGGAGATAATGGAATGGGCAGAGAGGACTCTCCCTTCCATAAGAGCAATACACATAAAAGGAGAGCTGAACCAAAAGGCAGACTGGCTCAGCAGATGCGCAGTCAACAACTCAGAATGGTGCCTGAATCAGGAAGTCTTCANTCTGATTTCGCAGAAGTTCGGCCTCCCGGCAGTCGACCTGTTTGCCAGTCGCAAGAACANAAAGCGGCCGAAGTACTTCACCAGGGAAGCAGATCCCAAGTCCCTGGGGACGGATGCTCTTTCGCACAGATGGCCACAAGGCCTGCTNTACGCATTCCCGCCCTTTCCACTTCTAGGAAAGGTGATCCAGAAGATAAGGCGAGAAGAAGCAAAGGTGATAGTGCTAGCTCCGCACTGGCCAAGGAGACCATGGTTCTCCGATCTGATAGAACTGAAATTGGAACCACCATTGCAGCTACCAGTGAGACCAGACATCCTTTACCAAGGCCCATTCCTCCATCCAGACCCAGACCGTCTACAACTGACAGCCTGGCTATTGAGAGGGAAGCGTTAGCCGCGCTCGGACTATCCTCCAAAGTGATTGGAACTCTACTCTCCTCCAGGCGAGCTTCAACGCTAAAGGCCTACTCCTCCATCTGGACTAGGTTTAGCTCATGGTGTCAAGAACACAACAAAAATCCCAAGGATCCTGGTATCCCAGTTATCCTGGACTTTCTTCAGGAAGGCGTGGACAAGGGACTTCAGCCCAGCACCGTAGCGCGCCAGGTGTCAGCCATAAGTAGCGTCCTACTCGCAGGATCCTCTGGTTCCTTGACAGAGAACCCTCAGGTATCCAGATTTCTCAGAGCAGTCAGACTGGCTAGACCTGCGGTCAGACCAATCTTTCCTAAGTGGGACCTACCACTGGTGCTAAAAGCCCTAACCACCCACCCTTTTGAGCCACTGACATCGATATCTCCATTCTACCTATCCATCAAAACCTGTTTTCTGGTCGCCATCACGTCTGCTAGACGAGTTTCTGAACTGGCAGCTTTATCCATGCAGGAACCNCACTGTGTGTTCCATGATGACAAGGTGGTGCTAAGAACCCCAGAATCTTTCTTGCCTAAGGTGAATTCATCTTTCCATGCCTCACAGGAGATCGTCCTCCCTTCATTCTGTCCAAAGCCACAGCATCCNACAGAAAAGCTGTGGCACANTNTGGATGTTCGNAGAGCACTAAAGATCTATATCAAGCGCACCGAATCGACAAGAAGATCGGGCTCCTTGTTCGTCTCCTTTCATCCGAAGTGCCAAGGGCTCAGGGTATCCAAGCTATCGCTGGCTAGATGGATCAAGCTATGCATCGTAGAGGCATACAAGGCGTCAGGTGCTCCTGTTCCAGACGGAATCAAGGCACACTCCACAAGATCTATGGCGACTTCGTGGGCAGAAAGAGCTTGTGCTTCCACCGCAGAGATCTGCAGGGCAGCAACGTGGTCATCGGTTAACACCTTTATTAGACACTATAAAGTGGACTTTCTGTCCTCTGCAGAGGCCTCCTTTGGCAGGAAGGTGCTGCAGGCGGTGGTCCAGTAATAGCATTGCCATTTTGGGCAATTAACTCGGGGNGGTCTTCCCTATCTCATTCTGTTTTTCTTTATCCCTCCCTACTTCTGTTCACTGCTCGCTACTTCCCATACGTATCAGAATTGTGGGAGACGCTGGGCTGCAGAATGGTAAATTTCTTACCCGATAATTTCCTTTCTGCTAGCAGCGTCTCCCACAATTCTACCCTCCCTGGNTGGCTTCCTAGCCAAGGGACAATATTTAATTTTGATAGTTACGTTTGTAGGCCATAGCCTACTGTACATAGTTTACTGGTTGGCATTGAAGTTATTGTTACTAATCATATTCTACGAGTTTTTACACAGCTTTGGAATGAATCATCTGGCAGCAGGCCGGAGAAGGGGGCGTGGCTAGCACGGGCTGTGCTACAGCTTTGAACCGCCTCTGGAACTGCACAGACGGGGGGGAATAGCCCATACGTATCAGAATTGTGGGAGATGCTGCTAGCAGAAAGGAAATTATCGGGTAAGAAATTTCCATTCT
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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-1a_Amnio | Spps | 103 | 113 | + | 18.44 | GCCACGCCCCC |
| DIRS-1a_Amnio | Spps | 5333 | 5343 | - | 18.44 | GCCACGCCCCC |
| DIRS-1a_Amnio | Bteb2 | 103 | 115 | + | 18.08 | GCCACGCCCCCTT |
| DIRS-1a_Amnio | Bteb2 | 5331 | 5343 | - | 18.08 | GCCACGCCCCCTT |
| DIRS-1a_Amnio | KLF3 | 102 | 111 | + | 18.00 | GGCCACGCCC |
| DIRS-1a_Amnio | SP8 | 104 | 114 | + | 17.99 | CCACGCCCCCT |
| DIRS-1a_Amnio | SP8 | 5332 | 5342 | - | 17.99 | CCACGCCCCCT |
| DIRS-1a_Amnio | KLF11 | 104 | 113 | + | 17.92 | CCACGCCCCC |
| DIRS-1a_Amnio | KLF11 | 5333 | 5342 | - | 17.92 | CCACGCCCCC |
| DIRS-1a_Amnio | kn | 3644 | 3653 | - | 17.83 | TCCCCAGGGA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
