MER21C
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000740 |
|---|---|
| TE superfamily | ERV3 |
| TE order | 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 | RFX1 | 258 | 273 | + | 1.06 | GGTCGCCAGAGGAACC |
| MER21C | RFX1 | 258 | 273 | - | 0.16 | GGTTCCTCTGGCGACC |
| MER21C | TCP14 | 655 | 672 | + | -0.55 | GGGGGTCGTGGGAACCCC |
| MER21C | ESR1 | 657 | 671 | + | -0.97 | GGGTCGTGGGAACCC |
| MER21C | Rarg | 485 | 501 | + | -1.76 | GAGGGCACGGAAGCTCC |
| MER21C | Rarb | 757 | 772 | - | -2.14 | ACAGGTTAAGGGCTCA |
| MER21C | Rarg | 757 | 771 | - | -3.11 | CAGGTTAAGGGCTCA |
| MER21C | TRP1 | 403 | 423 | + | -4.60 | CATAAAAACCCTAAACGACGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
