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 | ETV5::DRGX | 369 | 380 | - | 14.09 | CGGAAGTAACTA |
| Chap1a_Mam | INO4 | 852 | 860 | - | 14.09 | GCATGTGAG |
| Chap1a_Mam | PK06517.1 | 475 | 481 | - | 14.07 | CACGTGC |
| Chap1a_Mam | PK18474.1 | 475 | 481 | - | 14.05 | CACGTGC |
| Chap1a_Mam | DIV1 | 266 | 276 | - | 14.03 | TAGATAAGATA |
| Chap1a_Mam | BEH3 | 474 | 483 | + | 14.02 | TGCACGTGAG |
| Chap1a_Mam | HOXB2::ELK1 | 369 | 382 | - | 13.97 | AACGGAAGTAACTA |
| Chap1a_Mam | knrl | 130 | 140 | + | 13.97 | AAATTAGAGCG |
| Chap1a_Mam | BHLHE40 | 475 | 482 | - | 13.94 | TCACGTGC |
| Chap1a_Mam | pha-4 | 793 | 802 | - | 13.92 | AAAGTAAATA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
