CR1-11_Crp
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001328 |
|---|---|
| TE superfamily | CR1 |
| TE class | LINE |
| Species | Amniota |
| Length | 1461 |
| Kimura value | 40.81 |
| Tau index | 0.0000 |
| Description | CR1 (Chicken Repeat 1) retrotransposon, CR1-11_Crp subfamily |
| Comment | - |
| Sequence |
CCCAGAATTCTGAAAGAACTGGCACATGAAATCGCAGGTCCGGTAGCAAGGATTTTTAATAAATCTATCAAGTCAGAGGGTGGTACCATATGACTGGAGAAAGCAAACTTAGATGTGGAAAAAAGTGATCCGGGCAACTACAGGCCCGTTAGTCTGACCTCAATAGTATGCAAGGCTTTAGAACAAATTTTGAAGGAAAGAATAATTAAAGACATGGAGGTAAATGGAAAATGGGATAAAATGCAACATGGGTTTACCAAAGGTAGATCGTGCCAGACTAACCTGATACTTTCTTTGATAAGATAACTGATTTTCTAGACAAAGNAGAAATGCGGTAGATCTNATCTATCTGGACTTCAGTAAAGCATTTGATACGGTGCCACATGGGAAATATTAGTTAAGCTGGAGAAGATGGGGATTAGTACAAGAATTGTAAGGTGGTAAGGAGCTAAGGGAGATGACAACGGGTNGTGCTGAAAGGGAANTATCGGCTGGAGGAGGTTACTAGTGGAGTTCTCAAGGATCGGTCTTGGGACCGATCTTATTTAATATTTTCATTAATGACCTTGGCACAAAAGTAGGAGTGTGCTAATGAAATTTGCTGATGACACAAAGTTGGGAGGCATCGTCAATACAGAGGAGGATCGGGATATCATACAGGAAGAACTGGATGACCTTGAGACTGGAGTAATAGAAATGGGATGAAATTCAATAGTACAAAGTGCAAGGTCATGCACTTAGGGACTAATAAGAATTTCTGCTATAAGCTGGGAGCTCATCAGTTGGAAACGNCGGAGAAAGACCTGGGTGTACTAGTCGATCACAGGATGACTATGAGCCACCAATGTGATGCGGCCGTGAAAAAGGCAAATGCGATCCTAGGATGCATNAGAAGGTATTTCCAGTAGAGATAGGGAAGTATTAATGCCATTGTACAAGGACTGGTGAGACCTCATCTGGAATACTGTGTACAGTTCTGGTCACCCATGTTCAAGAAAGATGAATTCAAACTGGAACAGGTGCAGAGAAGGGCTACTAGGATGATCAGGGGAATGGAGAGCCTATCTTACGAGAGGAGACTAAAAGAGCTTGGCTTGTTTAGCCTAGCAAAACGAAGGCTGAGAGGGGATATGATTGCTNTCTATAAATACATCAGGGGGGTAAACACCAGGGAGGGAGAAGAGCTATTTAAGCTAAAGGACAATGTTGGCACAAGAACAAATGGGTATAAACTGGCCATGAATAAATTTAGGCTGGAAATTAGAAGAAGGTTTCTAACCATCAGAGCAGTGAGGTTCTGGAACAGCCTTCCAATAGGAGTAGTGGGGGCAAAAAACCTAACTAGTTTTAAGATGGAGCTTGATCAGTTTATGAAAGGGATTATATGACGTGGTTGCCTGCGATAGCAGGGGACTGATNAATGACCCAGGAGGTCCCTTCCAGTCCTATGTTCCTATGTTC
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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 |
|---|---|---|---|---|---|---|
| CR1-11_Crp | SNAI3 | 1016 | 1024 | + | 15.82 | ACAGGTGCA |
| CR1-11_Crp | sna | 1015 | 1023 | + | 15.40 | AACAGGTGC |
| CR1-11_Crp | NR5A1 | 721 | 732 | + | 15.40 | AGTGCAAGGTCA |
| CR1-11_Crp | ESRRA | 562 | 570 | - | 15.37 | CCAAGGTCA |
| CR1-11_Crp | SNAI2 | 1016 | 1023 | - | 15.10 | GCACCTGT |
| CR1-11_Crp | su(Hw) | 158 | 178 | + | 15.01 | CCTCAATAGTATGCAAGGCTT |
| CR1-11_Crp | RARB | 726 | 738 | + | 14.95 | AAGGTCATGCACT |
| CR1-11_Crp | ZNF214 | 555 | 567 | + | 14.86 | TCATTAATGACCT |
| CR1-11_Crp | Esrrg | 562 | 570 | - | 14.81 | CCAAGGTCA |
| CR1-11_Crp | ERR | 562 | 569 | - | 14.77 | CAAGGTCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
