LTR10F
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000397 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Catarrhini |
| Length | 511 |
| Kimura value | 6.02 |
| Tau index | 0.8392 |
| Description | LTR10F (Long Terminal Repeat) for HERVIP10F endogenous retrovirus |
| Comment | LTR10F is a long terminal repeat of the HERVIP10F endogenous retrovirus. Its very close subfamily flanks also the HERVIP10FH non-autonomous retrovirus. |
| Sequence |
TGTTAGATATGAGTTCTAAATTTCTCTTCAAAGAATCAATATGTCAGTATGTTCAATTCTTTGCCTTCTACTTTTAAACTTAACTTCCTCGTAAAGCAACCTTTTTCGATTACCTGCTCCACCCTGACTCATTCCGATTACCTGCTCCACCCTGACTCATTCCGATTACCTGCCACCTGCTCCGCCCTGACTCATTCATTCTCCGCCCTGCATAACCATTTTTNNNNCCCGCCAAACCACTCACCCCGTCACTCTCTTTAAATTAGCCAATCGGAATTAGTTTAGCCTGTGCGGTCTAACCCTAGCCAATAGGGGAACGACACAGCAGCAGGGGCCACGTGCGTCAGGGATAAGAACCCCTTCCCCTCCCTTGTCCAAGTGTGCGCTCACCATTGCTCCATCTGTAAGGGCGCACCCTTCTATAGAAGTANCTTGCCTTGCTGAGAATTAAAAAGAAAATTTTATATTCGAGTGCTATTTCTTTTGCGGCACCGAAACTTTATNTATAACA
|
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 |
|---|---|---|---|---|---|---|
| LTR10F | BHLH49 | 336 | 342 | + | 14.16 | CACGTGC |
| LTR10F | CHA4 | 200 | 207 | - | 14.15 | GGCGGAGA |
| LTR10F | PK06517.1 | 336 | 342 | + | 14.07 | CACGTGC |
| LTR10F | PK18474.1 | 336 | 342 | + | 14.05 | CACGTGC |
| LTR10F | BEH3 | 334 | 343 | - | 14.05 | CGCACGTGGC |
| LTR10F | FOSL2 | 124 | 133 | - | 13.98 | AATGAGTCAG |
| LTR10F | FOSL2 | 152 | 161 | - | 13.98 | AATGAGTCAG |
| LTR10F | FOSL2 | 187 | 196 | - | 13.98 | AATGAGTCAG |
| LTR10F | Zic1::Zic2 | 326 | 332 | + | 13.93 | CAGCAGG |
| LTR10F | GCN4 | 125 | 132 | + | 13.88 | TGACTCAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
