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
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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 |
|---|---|---|---|---|---|---|
| CR1-L3B_Croc | GBF2 | 363 | 371 | + | 15.52 | GACGTGGCA |
| CR1-L3B_Croc | Rfx | 999 | 1011 | - | 15.51 | GTCCCTAGGCAAC |
| CR1-L3B_Croc | SPT15 | 1068 | 1078 | + | 15.50 | GTAATATATAT |
| CR1-L3B_Croc | NDT80 | 2795 | 2803 | + | 15.46 | GCCACAAAA |
| CR1-L3B_Croc | sna | 766 | 774 | - | 15.46 | GACAGGTGC |
| CR1-L3B_Croc | HDG7 | 1968 | 1977 | - | 15.44 | GCATTAATTA |
| CR1-L3B_Croc | CG3065 | 581 | 591 | - | 15.37 | GCCACTCCCCC |
| CR1-L3B_Croc | BZIP28 | 362 | 371 | + | 15.36 | CGACGTGGCA |
| CR1-L3B_Croc | Zic2 | 218 | 226 | + | 15.33 | CTCAGCAGG |
| CR1-L3B_Croc | BCL6 | 2533 | 2545 | - | 15.30 | GCTTTCCAGGATA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
