LTR19B
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000432 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Haplorrhini |
| Length | 580 |
| Kimura value | 7.55 |
| Tau index | 1.0000 |
| Description | LTR19B (Long Terminal Repeat) for ERV1 endogenous retrovirus |
| Comment | LTR19 elements are flanked by 5 bp target site duplication. |
| Sequence |
TGACAGAGCAGGAGCACCGTCATCTCGGACAAACACCGCCACTTTAAGTTCCAGCTCCCTTTCTAGCCTCATGCATTTCAAGGAAATCACTTCTCTTCTAACTACAAGCAGCCAGAAAGAGCAGACAGTAAAACACAGATAAGACAGCTCGGGCACAGAGGGAGGTGGGGGGAAAGTCTCTTGGGTAACTGCCAAACTTCACCCTCATACAATGGGCCCCAGTAAAACAGTGGGCCTTAATAAGCACATTCCTTTCCCTTCAGGTGCACTAAGATAGGGAAGCTAAAAGCAGACTCGGGGNNNCGNCGGGGGGTATGCCTGCAGCTGCAGAAAGATGTATGGGAACAGACACACAACTCTCCCTCCCAGATAAGCACAACAAAGAGACACAGAAGCAGTCCAAGCCTCTGATAAACTCTCCCACCCTGAATCCTTAAAAACTCTTAGTCTGTAAGAGAGTGTGCCTCTGACCTAACTCGGCCAGAAGCCCCTCTCAGGTTTGTTTTCTCTAAAATAAACCTGTCTTTGNCGACTGTCGAGCCACCTTTCGTGTTTCTTTCCTCTTTCTTTAATTCTTACA
|
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 |
|---|---|---|---|---|---|---|
| LTR19B | ASCL1 | 321 | 328 | + | 13.67 | GCAGCTGC |
| LTR19B | ASCL1 | 321 | 328 | - | 13.67 | GCAGCTGC |
| LTR19B | MYB41 | 468 | 477 | + | 13.56 | TGACCTAACT |
| LTR19B | D1 | 510 | 517 | + | 13.51 | TAAAATAA |
| LTR19B | MYB77 | 185 | 193 | - | 13.37 | GGCAGTTAC |
| LTR19B | YAP7 | 236 | 246 | + | 13.30 | CTTAATAAGCA |
| LTR19B | DREB2E | 34 | 43 | + | 13.29 | CACCGCCACT |
| LTR19B | Stat4 | 77 | 86 | + | 13.28 | TTCAAGGAAA |
| LTR19B | bowl | 481 | 488 | - | 13.18 | GCTTCTGG |
| LTR19B | TCP21 | 212 | 222 | + | 13.15 | ATGGGCCCCAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
