LTR14C
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000412 |
|---|---|
| TE superfamily | ERV2 |
| TE order | LTR |
| Species | Catarrhini |
| Length | 587 |
| Kimura value | 5.32 |
| Tau index | 0.9690 |
| Description | LTR14C (Long Terminal Repeat) for HERVK14C endogenous retrovirus |
| Comment | Copies present at orthologous sites in old world monkeys, but absent from new world monkeys. |
| Sequence |
TGTGGGAAAGAGAGTTTCTGGGGTGCCAGNTGAGTTGGTCTCCCCTGTGTGAGACACCCATGGGGAGCCATGGGCGGCCTCTGAGGAGAAAAGTCTCCTTATTGCCTTCATGTCTTTATGCCCCGAGAGCATAACCGCTCAGCGGCATTCCACAGGTTGCTCAGGGAGATAACACTCCCTTGAAGCAGTGGAGTATAATCAAACATCTTGGCTCCTCCTGAAACCCGCTCCCACCCGTTTCAGTCCCGATAAGTTAAAGATCTTAAGTAGTTTAGACACACGCCTTTGCTCAAGGAAATTCACAGAAACCGCCACTGCTATACATCTTATCGAATGACTCACGAGTTCTCCTTCACTGATTAATCCTTTTCCTCATCCCTTCCTCCCCCTCCCATCTGCCCTAAGAACAAAGAGCTTGTAAACCAATAAATTGGGCGGAGCCCGAGAGCTCTGGGCCGTGAGCAAGCCTCCGACGCTCCGGTCCCCTGGACCCGCCTTTTAAACGCTTATTCTGTCTCTTTCTAACTCCTTTGTCTCCGCCGGACTCGGGGTACCCGCCGGGTGGTGTGGGGCTGGTTTCCCCAACA
|
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 |
|---|---|---|---|---|---|---|
| LTR14C | FOSL2::JUN | 334 | 342 | - | 14.26 | GTGAGTCAT |
| LTR14C | FOSL1::JUN | 334 | 342 | + | 14.26 | ATGACTCAC |
| LTR14C | CHA4 | 534 | 541 | - | 14.15 | GGCGGAGA |
| LTR14C | FOSL2::JUNB | 334 | 342 | + | 14.13 | ATGACTCAC |
| LTR14C | CTCF | 537 | 567 | + | 14.10 | CCGCCGGACTCGGGGTACCCGCCGGGTGGTG |
| LTR14C | FOSB::JUNB | 334 | 342 | + | 14.05 | ATGACTCAC |
| LTR14C | FOSL1 | 334 | 342 | + | 14.05 | ATGACTCAC |
| LTR14C | SP4 | 432 | 440 | + | 14.04 | TGGGCGGAG |
| LTR14C | jun-1 | 334 | 341 | + | 14.02 | ATGACTCA |
| LTR14C | Hoxa13 | 423 | 430 | + | 14.02 | CCAATAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
