MER21C
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000740 |
|---|---|
| TE superfamily | ERV3 |
| TE class | LTR |
| Species | Boreoeutheria |
| Length | 938 |
| Kimura value | 20.20 |
| Tau index | 0.9187 |
| Description | MER21C (Long Terminal Repeat) for ERVL endogenous retrovirus |
| Comment | MER21C may have evolved from MER21B by partial duplication of rougly the 5' terminal 90bp. Has 5 bp TSDs. 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 |
TGTGATATTGTGATATAATAAGAAATATATATTTGGTCTCTGCCCCCGGTTCCTGGCACAGAGCTCCTAAAACCCTTGTAATTTCCTGAGCGATAGGGGTGCTAGGAGCATCTTTTGTTCTAATATTTGGTCTTTGNCCCCGGTTCCTGACACAGAGCTCCTAAAACCCTTGGAATTTCCTGGGTGATAGGAGCGTCTTTTGTTCTAATGAGGTGACTCTTGGCTGGGGGCTCCTGGATAGCCTCAGGATGGGGGCTGGTCGCCAGAGGAACCAACCATGTGATTAGAGGGTTGGAACTTTCAGCCCCACCCCCGACCTCCGGGGAGGGGAGAGGGGCTGGAGATTGAGTTAATCACCAATGGCCAATGATTTAATCAATCATGCCTACGTAATGAAGCCTCCATAAAAACCCTAAACGACGGGGTTCGGAGAGCTTCCGGGTTGGTGAACACATNGAGGTGCCGGGAGGGTGGCGCGCCCGGAGAGGGCACGGAAGCTCCGCGCCCCTTCCCACATACCTTGCCCTATGCATCTCTTCCATCTGGCTGTTCATCTGTATCCTTTGTAATATCCTTTATAATAAACCGGTAAACGTAAGTAAAGTGTTTCCCTGAGTTCTGTGAGCCGTTCTAGCAAATTATCGAACCCGAGGAGGGGGTCGTGGGAACCCCCGATTTATAGCCGGTCGGTCAGAAGTACGGGTNACAACCTGGGACTTGCGACTGGCGTCTGAAGTGGGGGCAGTCTTGTGGGACTGAGCCCTTAACCTGTGGGGTCTGACGCTAACTCCAGGTAGNTAGTGTCAGAATTGAATTGAATTGTAGGACACCCAGTTGGTGTCCGCTGGAGAATTGNTTGGTGTGTGGGAAAAACCCCACACATTTGGTGTCAGAAGTGTTGTGAGAGTAGAGAAAAACAGTTTGTTTTTTCCTACACA
|
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 |
|---|---|---|---|---|---|---|
| MER21C | TRB2 | 408 | 418 | + | 15.15 | AAACCCTAAAC |
| MER21C | MYB58 | 441 | 449 | - | 14.97 | TCACCAACC |
| MER21C | CTCF | 460 | 492 | + | 14.92 | GTGCCGGGAGGGTGGCGCGCCCGGAGAGGGCAC |
| MER21C | KLF17 | 653 | 666 | - | 14.90 | CCCACGACCCCCTC |
| MER21C | ZNF574 | 623 | 636 | - | 14.84 | TGCTAGAACGGCTC |
| MER21C | KLF12 | 500 | 508 | - | 14.81 | GGGGCGCGG |
| MER21C | MYB13 | 440 | 449 | - | 14.77 | TCACCAACCC |
| MER21C | ELF4 | 433 | 444 | - | 14.77 | AACCCGGAAGCT |
| MER21C | ELF2 | 434 | 443 | - | 14.74 | ACCCGGAAGC |
| MER21C | PBX1 | 375 | 383 | + | 14.71 | ATCAATCAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
