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 | kn | 720 | 729 | - | 17.83 | TCCCCAGGGA |
| DIRS-1a_Amnio | DOF5.1 | 966 | 984 | + | 17.82 | AAAAGGGAAAGAAAAAATA |
| DIRS-1a_Amnio | CG4360 | 79 | 91 | - | 17.74 | CCAGCAACAACAC |
| DIRS-1a_Amnio | SVP | 4968 | 4983 | - | 17.67 | TTGCCCAAAATGGCAA |
| DIRS-1a_Amnio | LOB | 302 | 314 | + | 17.47 | CCGCCGCTGCAGC |
| DIRS-1a_Amnio | SP9 | 104 | 113 | + | 17.16 | CCACGCCCCC |
| DIRS-1a_Amnio | SP9 | 5333 | 5342 | - | 17.16 | CCACGCCCCC |
| DIRS-1a_Amnio | ZBTB18 | 1705 | 1715 | - | 17.09 | AGCCAGATGTG |
| DIRS-1a_Amnio | FEV | 1589 | 1597 | - | 17.06 | ACCGGAAGT |
| DIRS-1a_Amnio | AP3 | 4968 | 4980 | - | 17.04 | CCCAAAATGGCAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
