THE1A
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000005 |
|---|---|
| TE superfamily | MaLR |
| TE class | LTR |
| Species | Haplorrhini |
| Length | 355 |
| Kimura value | 7.51 |
| Tau index | 0.8500 |
| Description | Long terminal repeat (THE1A subfamily) |
| Comment | The LTR of THE1A retrovirus-like MaLR element. Has 5bp TSDs. This entry shows ~90% full-length similarity to THE1B. |
| Sequence |
TGATATGGTTTGGCTGTGTCCCCACCCAAATCTCAACTTGAATTGTATCTCCCAGAATTCCCACGTGTTGTGGGAGGGACCCAGGGGGAGGTAATTGAATCATGGGGGCCGGTCTTTCCCGTGCTATTCTCGTGATAGTGAATAAGTCTCACGAGATCTGATGGGTTTATCAGGGGTTTCCGCTTTTGCTTCTTCCTCATTTTCCTCTTGCCGCCGCCATGTAAGAAGTGCCTTTCGCCTCCCGCCATGATTCTGAGGCCTCCCCAGCCATGTGGAACTGTAAGTCCAATTAAACCTCTTTTTCTTCCCAGTCTCGGGTATGTCTTTATCAGCAGCGTGAAAACGGACTAATACA
|
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 |
|---|---|---|---|---|---|---|
| THE1A | PK09702.1 | 61 | 68 | - | 5.41 | ACACGTGG |
| THE1A | ZNF16 | 72 | 92 | + | 5.37 | GGGAGGGACCCAGGGGGAGGT |
| THE1A | ZIC5 | 236 | 250 | + | 5.36 | CGCCTCCCGCCATGA |
| THE1A | scrt | 61 | 71 | - | 5.16 | ACAACACGTGG |
| THE1A | REST | 237 | 256 | - | 4.32 | TCAGAATCATGGCGGGAGGC |
| THE1A | BZIP43 | 216 | 227 | + | 4.15 | GCCATGTAAGAA |
| THE1A | NFKB1 | 172 | 184 | - | 1.98 | AGCGGAAACCCCT |
| THE1A | NFKB1 | 172 | 184 | + | 1.90 | AGGGGTTTCCGCT |
| THE1A | ZNF143 | 49 | 64 | + | 0.41 | CTCCCAGAATTCCCAC |
| THE1A | TCP14 | 67 | 84 | + | -2.44 | GTTGTGGGAGGGACCCAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
