Chap1_Mam
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000080 |
|---|---|
| TE superfamily | Charlie |
| TE class | 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 | ZNF582 | 173 | 191 | + | 5.76 | TCACTCACTTGCATTCCGA |
| Chap1_Mam | RAMOSA1 | 205 | 218 | + | 5.63 | GTGGGAGAGAAAGG |
| Chap1_Mam | RLM1 | 77 | 90 | + | 5.49 | TACTAATAATAGTT |
| Chap1_Mam | BPC1 | 207 | 230 | + | 2.68 | GGGAGAGAAAGGGGTGGAGTTACA |
| Chap1_Mam | BPC6 | 164 | 184 | + | 1.97 | ACGTCACTCTCACTCACTTGC |
| Chap1_Mam | BPC6 | 168 | 188 | + | -3.51 | CACTCTCACTCACTTGCATTC |
| Chap1_Mam | BPC5 | 202 | 231 | + | -18.98 | TGAGTGGGAGAGAAAGGGGTGGAGTTACAG |
| Chap1_Mam | BPC5 | 208 | 237 | + | -36.04 | GGAGAGAAAGGGGTGGAGTTACAGCTAGCG |
| Chap1_Mam | BPC5 | 204 | 233 | + | -37.57 | AGTGGGAGAGAAAGGGGTGGAGTTACAGCT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
