CR1-L3B_Croc
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001327 |
|---|---|
| TE superfamily | CR1 |
| TE class | LINE |
| Species | Amniota |
| Length | 3277 |
| Kimura value | 38.62 |
| Tau index | 0.0000 |
| Description | CR1 (Chicken Repeat 1) retrotransposon, CR1-L3B_Croc subfamily |
| Comment | pol ORF 404-3151. |
| Sequence |
TAGAAAATCAGGGATCTTGGAAGAGAGCTGAAGAAGAGGAAAGTCCAAGTGATCTTCTCGGAGATCCTTCCGGTCCCGCGAGCAAGAGAAGACAGAAGCGGAAAATACTGGAGGTGAACCGTTGGCTGCACGACTGGTGTGAGTGAAGGTTTTGGTTTTGTGGAACGTTGGGCCACTTCCAGNGGAGAAGGGACTGTATGAATAGGACGGCCTGCATCTCAGCAGGGGGCGAANCANTNTTCTCGGCTGGNAGACTAGCTGGAGCAGCCAGGAGGACGTTAAACTAGCAACGCAAGGGGAGGGTGCTAAGAAGGCAAACGCGNTACAAACTCAAACTCAGCATGTCGCGAACAAATTGAACCGACGTGGCAAAGAATGTGAAGAGAAGANATTTTTCAATTGCTTATATACCAATGCTAGGAGTCTGGGTAACAAGCAAGAGGAACTGGAAATTCTCATTGATGAGAAGAAATTTGATATAATTGGCATTACTGAAACCTGGTGGGATGATTCGCATGACTGGAATGTTAAAATCNCTGGTTATAACCTGTTTAGGAAGGACAGAGCGGGTAAAAGAGGCGGGGGAGTGGCGCTCTACATTAAAGACACCATTACCTGTTTTAGAGTTATTGATAACTCAGAACCGCAGGATCTTGAATGCATATGGATCAATGTGCTAACTAACAAAGCCCAGGAGGGGGTACTGGTGGGGGTCTGTTACAGACCACCGAATCAAACCAGAGAACAGGATGAGTTACTCCTTAAGCACCTGTCTGTAATGTGTGGAAAGAAAAACTGTGTTGTTACGGGGGACTTCAGTTTGGGAGACATATGCTGGAGGTCTCATGCAGCCAGTAGTAAAACATCATTAGAGTTTCTAAAAATTATAGATGATAATTTTCTAACACAAAAGGTATTGCACCCAACACGAGGTAACTCTATTTTGGACCTCATTATGACGGATAAAGATGAATTAATCACTGGACTGGAAGTTGGTGGTTGCCTAGGGACCAGTGATCATGACCTGATTACATTCAATATGGGCAAACAGAGGACAGTCCCAACCAGTAATATATATACTTGGTGCTTCAAAAGGGCTAATTTCCCAAAGCTGAGGAAAATTATGAGCGAAATTGACTGGGAGGAAAAATTTAGACAGAAAAATGTGAATGAAAATTGGGAGTTCTTTAAGAAGAGTTTATTAGATGGCCAAAAAGCCACGATTCCACAATCAAGAAAGAGGACAACTTTGGCTAAAAGCCCATCCTGGTTCAGTGGCGAAGTGAAGGCAGCAATTAGAAATAAAAAAGCAATATATAACAAATGGGAAAAAGGGGAAATAGATAGCAATCGATATAAATTAGAAGTTATGAAGTGTAGAAAATTGATAAGGGAAGCTAAAGACATCAGGGAAAAATCCATGGCTGGCAGGGCTAAGGACAATAAGAAGGAATTTTTNAAGTATATTAGGAACAAAAGAAATCCTAGCAATGGTATAGGCCCATTACTAGATGGAGATGGTAAAATTGTTAATAATGATGCAGAAAAGGCAGAAGTGTTCAATAAATATTTCTGTTCTGTATTTGGAAAGAAGCAGGATGATGTACTCGTATCACATGAGGATGATGAAGTACTTTCCAGTCCATTAGTAACTAAGGAGGATGTTAAACAACATCTACTAGGGATAAACATTTTTAAATCAGCAGGCCCGGATAACTTGCACCCAAGAGTCCTAAAAGAGCTGGCTGAGGAGATCTCTGGCCCGCTGATGTTAATTTTTAATAAATCTTGGAATACCGGGGAAATTCCAGAAGACTGGAAGAGTGCTAATGTTGTGCCAATATTCAAAAAGGGCAAGCGGGATGACCCGGGTAACTATAGGCCGGTTAGCCTGACATCAGTCCCGGGCAAAATAATGGAAAAGCTGATACGGGATTCAATTAATAAAGAATTAAAGGATAGGAATATAATTAATGCCAGTCAACATGGTTTTATGGAAAATAGGTCTTGTCAAACAAACCTGATTTCATTCTTTGATGAGATTACAAGTTTGGTTGATAAAGGTAACTGCGTAGATGTAATATACTTAGACTTTTGTAAGGCGTTTGACTTAGTACCGCACGACATTCTGATTAAAAAATTAGCACTATACAATATCAATAAAGCACACGTTAAATGGATTAAGAACTGGCTAACTGACAGATCTCAAAAAGTAGTCGTCAATGGGGAATCATCATCGAATGGGGGTGTTTCTAGTGGGGTTCCGCAGGGATCGGTACTAGGCCCGACGCTATTCAACATTTTCATCAATGATCTGGAAGTAAATATAAAATCACTGCTGATAAAATTTGCGGATGACACAAAGATTGGCGGAGTGGTAAATAACGATGAGGACAGGGCAGTCATACAGAGCGATCTGGATCGCTTGGTAAGCTGGGCCCATTCAAACAAAATGCGTTTTAATACAGCCAAATGCAAAGTTATACATCTAGGAACAAGGAATGCAGGCCATACCTACAGAATGGGGGACTGTATCCTGGAAAGCAGTGACTCTGAAAAGGATTTAGGGGTCATAGTGGACAAGCAACTCAACATGAGCTCCCAGTGCGATGCTGTGGCAAAAAGGGCTAATGCGATCCTTGGATGTATAAACAGGGGAGTAGCGAGTAGGAGTAGGGAGGTGATTTTACCTCTGTATACGGCATTGGTGAGACCGATACTGGAATACTGCGTNCAGTTCTGGTGTCCACATTTTAAAAAGGATGTTGAAAAATTGGAGAGGGTGCAGAAAAGAGCCACAAAAATGATTCGAGGGCTGGAGAAAATGCCTTACAGTGAGAGACTTAAAGAGCTCAATCTGTTTAGCTTATCAAAAAGAAGATTGAGAGGTGACTTGATTACAGTGTATAAGTACCTTCACGGGGAGAAAATACCGGGTACTAAAGGGCTCTTTAATCTAGCGGAGAAAGGCATAACAAGAACCAATGGCTGGAAGCTGAAGCCAGACAAATTCAAATTAGAAATAAGGCACANATTTTTAACAGTGAGGGTGATTAACCACTGGAACAAACTACCAAGGGAAGTGGTGGATTCTCCATCTCTTGATGTCTTCAAATCAAGACTGGATGCCTTTCTGGAAGATATGCTTTAGTCAAACACAAGTTATTGGGCTCAATACAGGGGTAACTGGGTGAAATTTAATGGCCTGTGNTATACAGGAGGTCAGACTAGATGATCTAATGGTCCCTTCTGGCCTTAAANTCTATGAATCTATGAA
|
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-L3B_Croc | EWSR1-FLI1 | 2776 | 2793 | + | -15.82 | GGAGAGGGTGCAGAAAAG |
| CR1-L3B_Croc | DAL81 | 1847 | 1865 | + | -39.70 | AAAAAGGGCAAGCGGGATG |
| CR1-L3B_Croc | BPC5 | 2822 | 2851 | + | -44.95 | AAAATGCCTTACAGTGAGAGACTTAAAGAG |
| CR1-L3B_Croc | BPC5 | 22 | 51 | + | -45.01 | AGAGAGCTGAAGAAGAGGAAAGTCCAAGTG |
| CR1-L3B_Croc | BPC5 | 555 | 584 | + | -47.57 | GGAAGGACAGAGCGGGTAAAAGAGGCGGGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
