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 | GLI3 | 152 | 166 | + | 3.10 | GGCCCGCCCAGGGCG |
| MER9a2 | TRP2 | 112 | 132 | - | 2.88 | TCCGGTAAACCCACAACCTTC |
| MER9a2 | SOX21 | 331 | 345 | + | 2.53 | AACAATGCTAATGAC |
| MER9a2 | GLI3 | 11 | 25 | + | 2.42 | AGGCCCCCCAAAATC |
| MER9a2 | ZSCAN31 | 95 | 112 | + | -0.10 | CCATAACGCCCACGCTGG |
| MER9a2 | ESR1 | 485 | 499 | + | -1.08 | GGGTCTCCCCGACCG |
| MER9a2 | TRP1 | 111 | 131 | - | -4.13 | CCGGTAAACCCACAACCTTCC |
| MER9a2 | Sox21b | 331 | 345 | - | -9.85 | GTCATTAGCATTGTT |
| MER9a2 | BPC5 | 435 | 464 | - | -46.39 | AATTAAAGACACACACACAGAAATATAGAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
