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
|
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 | BPC5 | 5002 | 5031 | - | -37.48 | AGGGATAAAGAAAAACAGAATGAGATAGGG |
| DIRS-1a_Amnio | DAL81 | 643 | 661 | + | -39.14 | AACAGACCCGGGCCGGAGG |
| DIRS-1a_Amnio | BPC5 | 2117 | 2146 | + | -41.98 | GACAAGTGGGTGAGAGAGGTAGTGAGTTGC |
| DIRS-1a_Amnio | BPC5 | 3397 | 3426 | + | -44.34 | AGCGATGGAGATAATGGAATGGGCAGAGAG |
| DIRS-1a_Amnio | BPC5 | 3395 | 3424 | + | -46.90 | GAAGCGATGGAGATAATGGAATGGGCAGAG |
| DIRS-1a_Amnio | BPC5 | 4996 | 5025 | - | -48.39 | AAAGAAAAACAGAATGAGATAGGGAAGACC |
| DIRS-1a_Amnio | DAL81 | 48 | 66 | - | -51.72 | GAATTCCGCAGGCGGGGGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
