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 | MAZ | 15 | 22 | - | 16.08 | CCCCTCCC |
| MER61A | DOF3.4 | 213 | 229 | + | 15.94 | CCCTTTTTTTCCTTTTC |
| MER61A | DOF5.1 | 211 | 229 | - | 15.88 | GAAAAGGAAAAAAAGGGGA |
| MER61A | DOF5.8 | 211 | 229 | + | 15.76 | TCCCCTTTTTTTCCTTTTC |
| MER61A | HOXB13 | 232 | 240 | + | 15.62 | CCAATAAAA |
| MER61A | ZNF148 | 13 | 22 | - | 15.59 | CCCCTCCCAC |
| MER61A | E2F6 | 162 | 169 | + | 15.29 | GGCGGGAA |
| MER61A | DOF5.1 | 210 | 228 | - | 15.02 | AAAAGGAAAAAAAGGGGAA |
| MER61A | TFDP1 | 162 | 169 | + | 14.70 | GGCGGGAA |
| MER61A | SP1 | 107 | 115 | + | 14.40 | GGGGAGGAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
