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 | RXRG | 726 | 739 | + | 14.50 | AAGGTCATGCACTT |
| CR1-11_Crp | CDF3 | 120 | 127 | + | 14.46 | AAAAAGTG |
| CR1-11_Crp | Hsf | 1296 | 1303 | - | 14.43 | TTCCAGAA |
| CR1-11_Crp | HSFA6B | 1296 | 1303 | + | 14.34 | TTCTGGAA |
| CR1-11_Crp | hsf-1 | 1296 | 1303 | - | 14.34 | TTCCAGAA |
| CR1-11_Crp | SoxB1 | 924 | 934 | + | 14.32 | AATGCCATTGT |
| CR1-11_Crp | WIP5 | 401 | 413 | + | 14.31 | AGCTGGAGAAGAT |
| CR1-11_Crp | ken | 96 | 104 | - | 14.28 | GCTTTCTCC |
| CR1-11_Crp | daf-16 | 1161 | 1168 | + | 14.26 | GTAAACAC |
| CR1-11_Crp | NR1I2 | 663 | 677 | + | 14.25 | AGAACTGGATGACCT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
