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 | ESRRB | 671 | 680 | - | 18.10 | TCAAGGTCAT |
| CR1-11_Crp | DOF4.2 | 861 | 871 | + | 17.21 | AAAAAGGCAAA |
| CR1-11_Crp | Mecom | 296 | 306 | + | 16.83 | TGATAAGATAA |
| CR1-11_Crp | RARG | 726 | 738 | - | 16.83 | AGTGCATGACCTT |
| CR1-11_Crp | ESRRA | 672 | 680 | - | 16.33 | TCAAGGTCA |
| CR1-11_Crp | ESRRB | 561 | 570 | - | 16.16 | CCAAGGTCAT |
| CR1-11_Crp | Nr5A2 | 672 | 680 | + | 16.13 | TGACCTTGA |
| CR1-11_Crp | RARB | 727 | 739 | - | 15.95 | AAGTGCATGACCT |
| CR1-11_Crp | RARG | 727 | 739 | + | 15.95 | AGGTCATGCACTT |
| CR1-11_Crp | Esrrg | 672 | 680 | - | 15.85 | TCAAGGTCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
