MER102b
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000697 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 341 |
| Kimura value | 28.60 |
| Tau index | 0.9597 |
| Description | hAT-Charlie DNA transposon, MER102b subfamily |
| Comment | Present in Sus scrofa. Originally classified as a putative DNA transposon based on a weak nucleotide identity to MER58B. Final classification as a hAT DNA transposon is based on identification of 15 bp TIRs and 8 bp TSDs with MER1-like NTCTAGAN bias. MER stands for MEdium Reiteration frequency interspersed repeat. As such, MERs as a group are a grab bag of DNA transposons and retrotransposons. |
| Sequence |
CAGAGGTCGCAAACTGGCGGCCCGCGGGCCGAATCCGGCCCGCAGACGTGTTTTGTTTGGCCCGCACAGTGTTTTNAAANATTTTTGAATTAGTTGCCAACATTTAAAAATCGGGAGATTTCACATAAAAATCCGGATTTCCGGCTTCTCTTGAAAAATCAGAAGATCTGGCAACACTGGGCCCGCATTCCCGCATGGCAACAATCGGCTGGAGCTGAGTAGCAGCTGCCCCCTTTAGACGGGGCATGCGCTCTCCAGTTCGCCACAGTCCCCACCCGGCCCGCTTCACTCATTTACGTTACCTGCCTGGCCCCTGTAGGCATTTGAGTTTGCGACCCCTG
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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 |
|---|---|---|---|---|---|---|
| MER102b | ac | 222 | 229 | - | 14.47 | GCAGCTGC |
| MER102b | Ets65A | 137 | 144 | - | 14.44 | CCGGAAAT |
| MER102b | LBD18 | 138 | 145 | - | 14.41 | GCCGGAAA |
| MER102b | MYOG | 222 | 229 | + | 14.35 | GCAGCTGC |
| MER102b | MYOG | 222 | 229 | - | 14.35 | GCAGCTGC |
| MER102b | TCX3 | 81 | 92 | - | 14.20 | TAATTCAAAAAT |
| MER102b | hlh-1 | 221 | 230 | + | 14.10 | AGCAGCTGCC |
| MER102b | ZBED4 | 275 | 284 | + | 13.96 | CCCGGCCCGC |
| MER102b | Ets21C | 137 | 144 | - | 13.81 | CCGGAAAT |
| MER102b | ASCL1 | 222 | 229 | + | 13.67 | GCAGCTGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
