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 | SP4 | 107 | 115 | + | 14.38 | GGGGAGGAG |
| MER61A | FOXJ2::ELF1 | 128 | 138 | - | 14.17 | ACACAGGAAGA |
| MER61A | MAZ | 121 | 128 | + | 14.06 | CCCCTCCT |
| MER61A | Erg | 127 | 136 | - | 14.02 | ACAGGAAGAG |
| MER61A | Hoxa13 | 232 | 239 | + | 14.02 | CCAATAAA |
| MER61A | DOF1.5 | 210 | 225 | - | 13.97 | AGGAAAAAAAGGGGAA |
| MER61A | DOF5.8 | 210 | 228 | + | 13.95 | TTCCCCTTTTTTTCCTTTT |
| MER61A | DOF3.6 | 211 | 231 | + | 13.94 | TCCCCTTTTTTTCCTTTTCAC |
| MER61A | SP4 | 14 | 22 | + | 13.83 | TGGGAGGGG |
| MER61A | PATZ1 | 120 | 130 | - | 13.83 | AGAGGAGGGGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
