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 | HEY2 | 303 | 311 | + | 13.03 | GTCACGTGT |
| Chap1_Mam | NAC053 | 197 | 203 | - | 13.01 | CAAGAAA |
| Chap1_Mam | DYT1 | 304 | 317 | - | 13.01 | CGCGACACACGTGA |
| Chap1_Mam | CLOCK | 305 | 311 | - | 12.97 | ACACGTG |
| Chap1_Mam | NAC078 | 197 | 203 | - | 12.96 | CAAGAAA |
| Chap1_Mam | STP1 | 314 | 321 | + | 12.93 | CGCGGCGG |
| Chap1_Mam | NKX2-5 | 201 | 207 | - | 12.91 | CACTCAA |
| Chap1_Mam | SATB1 | 79 | 85 | + | 12.89 | CTAATAA |
| Chap1_Mam | PK18009.1 | 305 | 311 | - | 12.84 | ACACGTG |
| Chap1_Mam | ERF118 | 314 | 321 | - | 12.84 | CCGCCGCG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
