Chap1_Mam
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000080 |
|---|---|
| TE superfamily | Charlie |
| TE order | DNA |
| Species | Eutheria |
| Length | 342 |
| Kimura value | 29.70 |
| Tau index | 0.9332 |
| Description | hAT-Charlie DNA transposon, Chap1_Mam subfamily |
| Comment | Chap1_Mam TSD is "NNCTAGNN". |
| Sequence |
CAGCGGTTCTCAACCGCGGTGTCACGACACACTGGTGTGTCGCGATCAGTTGTGAGGTGTGTCGCAAGTAATTTGTTACTAATAATAGTTAAAGTACCGAAGTTTGCGAATGATTTACTTTTTTTAAATAAATTAGAGCGGATTCAAGGTTATCCCTATAATAACGTCACTCTCACTCACTTGCATTCCGATATGCTTTCTTGAGTGGGAGAGAAAGGGGTGGAGTTACAGCTAGCGCGCCGGGAATTGCGCGTAACCCCGGGTATGCCCATGGGAGTGTGTCGCGCATGTGAACGTCATCCGTCACGTGTGTCGCGGCGGAAAAAAGGTTGAGAACCGCTG
|
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 |
|---|---|---|---|---|---|---|
| Chap1_Mam | INO4 | 286 | 294 | + | 16.24 | GCATGTGAA |
| Chap1_Mam | INO2 | 286 | 294 | + | 16.20 | GCATGTGAA |
| Chap1_Mam | TFEC | 303 | 310 | - | 15.88 | CACGTGAC |
| Chap1_Mam | MEF2B | 78 | 89 | + | 14.91 | ACTAATAATAGT |
| Chap1_Mam | ARNT2 | 303 | 310 | + | 14.81 | GTCACGTG |
| Chap1_Mam | Arntl | 303 | 310 | + | 14.56 | GTCACGTG |
| Chap1_Mam | NKX2-2 | 201 | 208 | - | 14.54 | CCACTCAA |
| Chap1_Mam | DOF1.7 | 113 | 123 | - | 14.47 | AAAAAGTAAAT |
| Chap1_Mam | TFEB | 303 | 310 | - | 14.25 | CACGTGAC |
| Chap1_Mam | Usf | 303 | 310 | - | 14.09 | CACGTGAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
