MER61A
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000883 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Haplorrhini |
| Length | 341 |
| Kimura value | 12.14 |
| Tau index | 0.8268 |
| Description | MER61A Long Terminal Repeat for ERV1 endogenous retrovirus |
| Comment | An earlier reconstruction name MER61 was refined and renamed MER61A. 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 |
TGAGACAGCCAGGTGGGAGGGGGTCCCCGGAGAAACTCCAACCGGCCTGCGCACTGGGAGGAGTGCGCACTGGGGTGGAGCCNCGGAAGTTCGCGCCGTTTGCAGCGGGGAGGAGCCTGGCCCCTCCTCTTCCTGTGTGGAACCTGGGATTCAANCTGCGAGGCGGGAAGCGCNCTAGCAGGGACTCTGGCCTTGCGGAGAGTCCCTGTTTCCCCTTTTTTTCCTTTTCACCCAATAAAACCCTGCCTTACTCACCCTTCAAATCGTCTGCGAGCCTAAATTTTCGTGGCCGTGGGACAAGGACCCCGTCTTTAGCTGAACTAAGGAAAAGTCCTGCAACA
|
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 |
|---|---|---|---|---|---|---|
| MER61A | ZNF263 | 108 | 114 | + | 13.83 | GGGAGGA |
| MER61A | ZNF263 | 56 | 62 | + | 13.83 | GGGAGGA |
| MER61A | PATZ1 | 13 | 23 | + | 13.72 | GTGGGAGGGGG |
| MER61A | GABPA | 127 | 136 | + | 13.67 | CTCTTCCTGT |
| MER61A | opa | 103 | 114 | - | 13.66 | TCCTCCCCGCTG |
| MER61A | KLF5 | 72 | 81 | - | 13.49 | GCTCCACCCC |
| MER61A | SP8 | 12 | 22 | - | 13.45 | CCCCTCCCACC |
| MER61A | DOF3.2 | 212 | 227 | + | 13.44 | CCCCTTTTTTTCCTTT |
| MER61A | KLF5 | 14 | 23 | - | 13.41 | CCCCCTCCCA |
| MER61A | blmp-1 | 219 | 229 | - | 13.40 | GAAAAGGAAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
