Chap1a_Mam
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001209 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 1038 |
| Kimura value | 29.37 |
| Tau index | 0.0000 |
| Description | hAT-Charlie DNA transposon, Chap1a_Mam subfamily |
| Comment | Present in Afrotheria, Xenarthra and humans, absent from marsupials. No apparent coding region. |
| Sequence |
CAGCGGTTCTCAACCGCGGTGTCGCGACACACTGGTGTGTCGCGATCAGTTGTGAGGTGTGTCGCAAGTAATTTGTTACTAATAATAGTTAAAGTACCGAAGTTTGCGAATGATTTACTTTTTTTAAATAAATTAGAGCGGATTCAAGGTTATCCCTATAATAACGTCACTCTCACTCACTTGCATTCCGATATGCTTTCTTGAGTGGGAGAGAAAGGGGTGGAGTTACAGCTAGCGCGCCGGGAATTGCGCATAACCCGCAGCCTATCTTATCTATGCCGCAGCCCGTAGTGAGCGACCGTTACTGATGTACCGTTAATAGTTGTGGCGATTACGAATTATTGTAGTGCTTGTGAGTTGTGATTTTATAGTTACTTCCGTTTTCTTTTTAATTTTACCCATGGATAAATTTTTAATAAGGAAGAAGGCAAGGATAGATGAAGAAAGCATGAGTAGTGCATCTACATCTACATTGCACGTGAGCAAGAATGATGCTATGAACATTTCTGTTAGTAACGACACAACAGTTATGATTACCAAATCAAAGGCAGACAAAGTGATGATGCAAGTGAAATTTGCAATAACGCTATTCATATTAATAATGTTAAAAATCTGTAAATTCTATGTATTGTAATTTTAAACAATAAAATAAGGTTTATTTATGCTTATTCTTCAATAGTACATACTTGCTCGCCTTATTAATATTACCTGTGGAGTGGAGGTCTGGAAAAAAATCAAGACTCATTTTNAAAAATAAAGTTCAATATTTTAAAAAATTAGATTAGCCATATTTATTTACTTTTCCTTGTAAAATGACAATTTTTGAGATCTTTAAATGGCTGATTTCATTACTCACATGCTTATAAAATGCTTTTATGAATACCACGCCAAAAAAAAGTCTGTGGCGCTATTTGCTTTACTTCCCCGCAAAATTTTTTNGGGTTTCGTCAAAATCTGGGTACGCCCATGGGAGTGTGTCGCGCATGTGAACGTCATCCGTCATGTGTGTCGCGGCGGAAAAAAGGTTGAGAACCGCTG
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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 |
|---|---|---|---|---|---|---|
| Chap1a_Mam | DOF5.8 | 372 | 390 | + | 14.45 | TTACTTCCGTTTTCTTTTT |
| Chap1a_Mam | AZF1 | 382 | 390 | - | 14.41 | AAAAAGAAA |
| Chap1a_Mam | ZNF766 | 652 | 660 | - | 14.38 | AATAAACCT |
| Chap1a_Mam | atfs-1 | 560 | 569 | + | 14.37 | ATGATGCAAG |
| Chap1a_Mam | PK03576.1 | 475 | 481 | - | 14.20 | CACGTGC |
| Chap1a_Mam | MYB3R1 | 297 | 304 | - | 14.18 | TAACGGTC |
| Chap1a_Mam | Lef1 | 541 | 548 | - | 14.17 | CCTTTGAT |
| Chap1a_Mam | BHLH49 | 475 | 481 | - | 14.16 | CACGTGC |
| Chap1a_Mam | ATHB-20 | 337 | 344 | - | 14.11 | CAATAATT |
| Chap1a_Mam | DOF3.2 | 382 | 397 | + | 14.11 | TTTCTTTTTAATTTTA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
