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 | dl | 866 | 877 | - | 18.43 | GGGGTTTTTCCC |
| MER21C | PRDM9 | 324 | 343 | + | 18.41 | GGAGGGGAGAGGGGCTGGAG |
| MER21C | AT1G72740 | 408 | 418 | - | 18.15 | GTTTAGGGTTT |
| MER21C | Dux | 368 | 378 | + | 18.11 | TGATTTAATCA |
| MER21C | PATZ1 | 304 | 314 | - | 17.22 | GGGGGTGGGGC |
| MER21C | ZNF148 | 321 | 330 | - | 17.19 | CCCCTCCCCG |
| MER21C | Su(H) | 661 | 670 | + | 17.17 | CGTGGGAACC |
| MER21C | ZNF281 | 305 | 314 | - | 17.16 | GGGGGTGGGG |
| MER21C | Dux | 368 | 378 | - | 16.96 | TGATTAAATCA |
| MER21C | ZNF135 | 311 | 324 | + | 16.81 | CCCCGACCTCCGGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
