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 | KLF13 | 102 | 118 | + | 23.05 | GGCCACGCCCCCTTCTT |
| DIRS-1a_Amnio | KLF13 | 5328 | 5344 | - | 21.60 | AGCCACGCCCCCTTCTC |
| DIRS-1a_Amnio | CG3065 | 103 | 113 | + | 20.72 | GCCACGCCCCC |
| DIRS-1a_Amnio | CG3065 | 5333 | 5343 | - | 20.72 | GCCACGCCCCC |
| DIRS-1a_Amnio | SP3 | 103 | 113 | + | 19.87 | GCCACGCCCCC |
| DIRS-1a_Amnio | SP3 | 5333 | 5343 | - | 19.87 | GCCACGCCCCC |
| DIRS-1a_Amnio | AGL63 | 4968 | 4982 | - | 19.56 | TGCCCAAAATGGCAA |
| DIRS-1a_Amnio | KLF16 | 103 | 113 | + | 19.28 | GCCACGCCCCC |
| DIRS-1a_Amnio | KLF16 | 5333 | 5343 | - | 19.28 | GCCACGCCCCC |
| DIRS-1a_Amnio | KLF17 | 4306 | 4319 | + | 18.79 | ACCACCCACCCTTT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
