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
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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 | ZNF667 | 757 | 767 | - | 15.80 | TTAAGGGCTCA |
| MER21C | NFYB | 362 | 370 | - | 15.74 | TCATTGGCC |
| MER21C | PATZ1 | 649 | 659 | + | 15.73 | CGAGGAGGGGG |
| MER21C | SPT15 | 22 | 32 | + | 15.72 | GAAATATATAT |
| MER21C | TRB1 | 408 | 416 | + | 15.53 | AAACCCTAA |
| MER21C | KLF4 | 305 | 312 | + | 15.48 | CCCCACCC |
| MER21C | dar1 | 304 | 314 | + | 15.25 | GCCCCACCCCC |
| MER21C | KLF9 | 304 | 314 | + | 15.20 | GCCCCACCCCC |
| MER21C | KLF10 | 305 | 313 | - | 15.20 | GGGGTGGGG |
| MER21C | RELA | 171 | 180 | + | 15.18 | TGGAATTTCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
