Chap1a_Mam
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001209 |
|---|---|
| TE superfamily | Charlie |
| TE order | 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 | BPC5 | 202 | 231 | + | -18.98 | TGAGTGGGAGAGAAAGGGGTGGAGTTACAG |
| Chap1a_Mam | BPC5 | 208 | 237 | + | -36.04 | GGAGAGAAAGGGGTGGAGTTACAGCTAGCG |
| Chap1a_Mam | BPC5 | 204 | 233 | + | -37.57 | AGTGGGAGAGAAAGGGGTGGAGTTACAGCT |
| Chap1a_Mam | DAL81 | 894 | 912 | + | -39.97 | AAAAGTCTGTGGCGCTATT |
| Chap1a_Mam | BPC5 | 432 | 461 | + | -43.79 | GGATAGATGAAGAAAGCATGAGTAGTGCAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
