MER9a2
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000970 |
|---|---|
| TE superfamily | ERV2 |
| TE class | LTR |
| Species | Catarrhini |
| Length | 513 |
| Kimura value | 3.85 |
| Tau index | 0.0000 |
| Description | MER9a2 Long Terminal Repeat for ERVK endogenous retrovirus |
| Comment | MER9a2 is a very minor variant of MER9a1. Note that MER stands for MEdium Reiteration frequency interspersed repeat. As such, MERs as a group are a grab bag of DNA transposons and retrotransposons. |
| Sequence |
TGTTGGGAACAGGCCCCCCAAAATCTGGCCATAAACTGGCCCCAAAACTGGCCATAAACAAAATCTCTGCAGCACTGTGACATGTTCATGATGGCCATAACGCCCACGCTGGAAGGTTGTGGGTTTACCGGAATGAGGGCAAGGAACACCTGGCCCGCCCAGGGCGGAAAACCGCTTAAAGGCATTCTTAAGCCACAAACAATAGCATGAGCGATCTGTGCCTTAAGGACATGCTCCTGCTGCAGNTAACTAGCCCAACCCATCCCTTTANTTCGGCCCATCCCTTCGTTTCCCATAAGGGATACTTTTAGTTAATCTAATATCTATAGAAACAATGCTAATGACTGGCTTGCTGTTAATAAATACGTGGGTAAATCTCTGTTCGGGGCTCTCAGCTCTGAAGGCTGTGAGACCCCTGATTTCCCACTTCACACCTCTATATTTCTGTGTGTGTGTCTTTAATTCCTCTAGCGCCGCTGGGTTAGGGTCTCCCCGACCGAGCTGGTCTCGGCA
|
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 |
|---|---|---|---|---|---|---|
| MER9a2 | TBX2 | 428 | 436 | - | 14.58 | AGGTGTGAA |
| MER9a2 | ZNF454 | 387 | 403 | + | 14.54 | GGCTCTCAGCTCTGAAG |
| MER9a2 | egrh-1 | 101 | 108 | + | 14.52 | CGCCCACG |
| MER9a2 | Tbox-a | 428 | 436 | - | 14.42 | AGGTGTGAA |
| MER9a2 | CDX1 | 27 | 36 | + | 14.37 | GGCCATAAAC |
| MER9a2 | CDX1 | 50 | 59 | + | 14.37 | GGCCATAAAC |
| MER9a2 | MGA | 429 | 436 | - | 14.27 | AGGTGTGA |
| MER9a2 | GFI1 | 61 | 71 | + | 14.19 | AAATCTCTGCA |
| MER9a2 | PK02532.1 | 318 | 325 | + | 14.19 | TAATATCT |
| MER9a2 | TB1 | 12 | 20 | + | 14.18 | GGCCCCCCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
