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 | KLF5 | 304 | 313 | + | 16.67 | GCCCCACCCC |
| MER21C | ZNF530 | 325 | 338 | + | 16.43 | GAGGGGAGAGGGGC |
| MER21C | ZNF75A | 863 | 874 | - | 16.36 | GTTTTTCCCACA |
| MER21C | KLF16 | 304 | 314 | + | 16.26 | GCCCCACCCCC |
| MER21C | MAZ | 323 | 330 | - | 16.08 | CCCCTCCC |
| MER21C | SP1 | 322 | 330 | + | 16.06 | GGGGAGGGG |
| MER21C | DUXA | 367 | 379 | + | 15.91 | ATGATTTAATCAA |
| MER21C | DUXA | 367 | 379 | - | 15.87 | TTGATTAAATCAT |
| MER21C | Pgr | 913 | 929 | - | 15.86 | AAAAACAAACTGTTTTT |
| MER21C | SP4 | 322 | 330 | + | 15.85 | GGGGAGGGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
