CR1-L3A_Croc
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001326 |
|---|---|
| TE superfamily | CR1 |
| TE class | LINE |
| Species | Amniota |
| Length | 4288 |
| Kimura value | 35.65 |
| Tau index | 0.0000 |
| Description | CR1 (Chicken Repeat 1) retrotransposon, CR1-L3A_Croc subfamily |
| Comment | - |
| Sequence |
CTGTGACCCTTGGGTCTNTGATCAGCCCTGGTGTTTGAAGTCTCTGAGTAGTTAATCCCTCCCTGATTAGCGAGGGGGTGGAGCTGAGCAGCGAGGCTTAGTAGTAAAGTCAGTTGCCAGGCGAACTCNTGAGCAGCGGAAAACGAGAGCGTTTTGGAGGGAGTTTGGAGGGGAGTGTGNGAAGCTTTCTTTCTAGGTACAGTTCTACGCTCAATACCGTGATGGCCAGCGATGGANCAGTGGTTGTGACCTGCAACGGATGCGCCACGTTTTCTTTCCTGCCTGAAGCCAGAAGGGACTTCCTGTGTATGAAGTGCAAGTTGGTGGCTGTGCTGGAAGAAAAGATTCGTGGTTTGGAAGGACAAGTACTGACGCTGCGGAGCATCAGAGAGGCTGAGGAGTTCTTGGACAACCAGATTCGGGAAGCATCACCACCCCAGATTCAAGAAAGAAAGGAACTGGCCACCAAGGAACCAGAAAGAGAGGAAACCAGAGAGGAGGCTTGGCAGTTCGTAACCACCAGAGGCAAGAGGACGAGGCGGCATTCTACACGGCTGGAGGCAGANGAGGATGGGCAGGCTGTGACCACCAGAGAGAAGAGGACCAGGAGGAATTCCACACAGCTAGAAGTATCCAATCGTTACCAGGTTCTCAGCGTGGAAACTGCAGAAAATATCTCTGAAGATCCAGCTGGTCGAATGGAACGGAGAGCTGTACGGGACATACCTGTGGATGGCTGCTCAGCCCAACCCGCAAGACGATCAAGCGTGCCCACAAAGAGATCTCCAACCATCCAAGGAAGACAGACGATCCTTGTCGGGGATTCTATACTAAGAAGAATGGAAAGAACGTTCTGCAAGGGACAGGCGGACAACAGGACGGTGTGCTGTCTTCCCGGAGCCAAGACACGAGATGCGACTCTAAGACTGGATAGGCTTCTGAAGTCGGCGGGCAAGGATCCACTGGTGATGGTGCATATCGGCACTAATGACACTGCTTCGCGNGATACCTCACAGATTATAGACGACTTCAGGGAACTCGGAAGGGTGCTGAAGGAGAAGAATGTCCAAGTGATCTTCTCGGAGATCCTTCCTGTCCCACGAGCGAAGGAAGACAGAAGGCAGAAGATTCTGGAAGTGAACCGCTGGCTAGGTAAGTGGTGTAAGGTAGAGGGTTTTGGTTTTGTGGAACACTGGTCCACCTTCTATGGGGAGAAGGGGCTGTACAGTTTGGATGGCCTCCATCTCAGTAGAAGGGGAACCAGTCTTCTAGGGGACAGGCTGGCTAGACTAGTCAGGAGGGCGTTAAACTAACAACAAAAGGAGGGAGTGAAAGAGGGAAACAAATGAGCACTCATTTAGCACAAAATCAAGATGTCGAGAACAAAATTAATCAAGGCACCAAGGGACGTGAAGAGAAGAAATTCTTTAATTGCCTATACACCAATGCTAGGAGCCTGGGTAATAAACAAGAGGAATTGGAATTGCTCATTTATGAGCATAAATTCGACCTAGTTGGTATTACTGAAACCTGGTGGGAAGATTCGCATGACTGGAATGTTAAAATCAATGGTTATAACCTATTTAGGAAGGATCGAGTGGGCAAAAGGGGAGGGGGAGTGGCACTCTATGTCAAAAATGGCATTACCTGTTTCCGAGTCACTGACAACTCGGAAGCAAATGATCTTGAATGCTTATGGATCAATGTTCTAACAGATAAAGCACAAGATGGGGTACTAGTTGGTGTCTGCTACAGACCACCAAATCACACTAGAGAACAGGATGACCGGCTCCTTAAGCACCTATCTATAATGTGTAGGGGAAAAAGCTGCGTTATCACGGGGGACTTCAATCTGAGTGACATATGCTGGAGGTCTCATGCTGCCAGTACTAAAACGTCCTCGGAATTTCTAAAAATTATAGATGACAATTTCCTAACTCAAAAAGTGTTGCATCCAACACGGGGGAATTCTATATTAGACCTCATCTTGACAGATAAAGAGGAATTGATCACAGAACTAAAAATTAGTGGTTGCTTAGGTGCAAGTGATCATGACTTGATTACATTTGTTATGTGCAAACAGAATAAAGTCCAAACCAGTAATATATATACTTGGTGCTTTAAAAGGGCCAGTTTCACAAAGCTGAAAACAATTATGAGCCAAATCAGCTGGGAGAAAGAATTTAAACAGAAAAATGTGAATGATAATTGGGAACTGTTTAAGAACATTTTACTAGATGCCCAAAAAGCCACAATCCCACAATCGAGAAAGAAGGCTACGCTGGTTAAAAAACCAGCCTGGCTTAGAGGGGAAGTGAAAGCAGCTATAAAAAATAAAAAAGCAATATATAACAAATGGAAAAAAGGGGAAGTTGATAGCAATGAATATAAATTAGAAGCTAGGAATTGTAGAAAATTGATAAGGGAAGCAAAAGGACACAAGGAGAAATCTATGGCCAGCAGAGTTAAGGACAATAAGAAGGAGTTTTTNAAGTATATTAGGAACAAAAGGAATCCTAACAATGGTATTGGTCCATTACTAGATGGAAATGGTAGAATTGTCAATAATAATGCAGAAAAGGCAGAAGTGTTCAATAAATATTTCTGTTCTGTATTTGGGAAAAAGCCAGATGATGTANTCGTATCACATGATGATGATGAAATACTTTCCATTCCAACAGTAACTAAGGAGGATGTTAAACAGCAGCTACTAAAGTTAGACATTTTTAAATCAGCAGGTCCGGATAACTTGCATCCAAGAGTTTTAAAAGAGCTGGCCGAGGAGCTCTCTGGACCGTTAATGTTGATTTTCAATAAGTCTTGGAACACTGGGGAAGTTCCAGAGGACTGGAAGAAAGCTAATGTTGTGCCAATATTTAAAAAGGGTAAACGGGATGACCCGGGTAATTATAGGCCTGTCAGCCTGACATCGATCCCGGGCAAAATAATGGAACGGCTGATACGGGACTCGATTAATAAAGAATTAAAGGAGGGTAATATAATTAATGCCAATCAACATGGGTTTATGGAAAATAGATCTTGTCAAACTAACTTGATATCTTTTGATGAGATTACAAGTTTGGTTGATAAAGGTAATAGCGTTGATGTAATATACTTAGACTTCTGTAAGGCATTTGACTTGGTACCGCACGACATTTTGATTAAGAAACTAGAACGATACAAAATCAACATGGCACACATTAAATGGATTAAAAACTGGCTAACTGATAGGTCTCAAAATGTAATTGTAAATGGGGAATCATCATCGAGCGGGCGTGTTTCTAGTGGGGTCCCGCAGGGATCGGTTCTTGGCCCTACGCTATTTAACATTTTTATCAATGACCTGGAAGAAAACATAAAATCATTACTGATAAAGTTTGCAGATGACACAAAGATTGGGGGAGTGGTAAATAATGAAGAGGACAGGTCACTGATACAGAGCGATCTGGATCGCTTGGTAAGCTGGGCGCAAGCAAACAATATGCGTTTCAATACGGCCAAATGTAAAGTCATACATCTAGGAACAAAGAATGCAGGCCATACTTACAGGATGGGGGACTCTATCCTGGGAAGCAGCGACTCTGAAAAGGACTTGGGGGTCACGGTGGATAATCAGCTGAACATGAGCTCCCAGTGCGACGCTGTGGCCAAAAGGGCTAATGCGATCCTTGGATGTATAAACAGGGGAATNTCGAGTAGGAGTAGGGAGGTTATATTACCTCTGTATTTGGCACTGGTGCGACCGCTACTGGAATACTGTGTCCAGTTCTGGTGTCCACANTTCAAGAAGGATGTTGANAAATTGGAGAGGGTTCAGAGAAGAGCCACGAGAATGATTAAAGGACTGGAAAACATGCCTTATAGTGAGAGACTCAAGGAGCTCAATCTATTTAGCTTATCAAAGAGAAGGTTAAGGGGTGACTTGATCGCAGTCTATAAGTACCTACACGGGGAACAGAAATTTGATAATAGAGGGCTCTTCAGTCTAGCAGACAAAGGTATAACAAGATCCAATGGCTGGAAGTTGAAGCTAGACAAATTCAGACTAGAAATAAGGNGCAANTTTTTAACAGTGAGGGTAATTAACCACTGGAACAACTTACCAAGGGNTGTGGTGGATTCTCCATCACTGGAAATTTTTAAATCAAGATTGGATGTTTTTCTAAAAGATATGCTCTAGTTCAAACAGGAATTAATTCGGGGAAGTCCTATGGCCTGCGTTAGCAGGAGGTCGGACTAGATGATCTACAGNGGTCCCTTCCGGCCTTANAATCTATGAATCTATGAA
|
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 |
|---|---|---|---|---|---|---|
| CR1-L3A_Croc | BPC5 | 474 | 503 | + | -46.82 | CCAGAAAGAGAGGAAACCAGAGAGGAGGCT |
| CR1-L3A_Croc | BPC5 | 1320 | 1349 | + | -47.02 | AAGGAGGGAGTGAAAGAGGGAAACAAATGA |
| CR1-L3A_Croc | BPC5 | 1322 | 1351 | + | -49.26 | GGAGGGAGTGAAAGAGGGAAACAAATGAGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
