HERV-Fc1_LTR1
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000177 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Homininae |
| Length | 346 |
| Kimura value | 2.12 |
| Tau index | 1.0000 |
| Description | LTR1 (Long Terminal Repeat) for endgenous retrovirus HERV-Fc1 |
| Comment | - |
| Sequence |
TGATTGGACTCCGGTGAAGACTCCAAGATGGCGATCGCCACCTCGGATACCCTGACTCAGCATTTCCGGGTTCACCTTTCCTGTTCCCGCCACCCCGACTAACGCGCATGCCCACTAGGGCGTGTCACACTCAGAAGCGCGAAACTCAACCGACCCCGCCCCTACCCCGCCCACTCCTCACCCAGCATCCATAAAAGCGCGCTGCACCTTTGGCACAGCGCGACTTCCCTGGCCCTCCCCCTGCGGACCAGTGAACCTCGCCCGAGAGCTCAATAAAGAAGATTTTTGCCCTCTTTGTCTCGCCTCTCGGCCTTATTGATCCACGGTGCCCTTCCATTGCCTTTCA
|
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 |
|---|---|---|---|---|---|---|
| HERV-Fc1_LTR1 | Klf6-7-like | 149 | 168 | + | 19.62 | ACCGACCCCGCCCCTACCCC |
| HERV-Fc1_LTR1 | Bach1::Mafk | 51 | 62 | + | 19.16 | CCTGACTCAGCA |
| HERV-Fc1_LTR1 | phol | 24 | 33 | - | 18.44 | CGCCATCTTG |
| HERV-Fc1_LTR1 | ZNF530 | 231 | 244 | - | 18.29 | GCAGGGGGAGGGCC |
| HERV-Fc1_LTR1 | Mafg | 51 | 62 | + | 18.17 | CCTGACTCAGCA |
| HERV-Fc1_LTR1 | KLF12 | 154 | 162 | - | 18.01 | GGGGCGGGG |
| HERV-Fc1_LTR1 | Klf15 | 159 | 180 | + | 18.01 | CCCCTACCCCGCCCACTCCTCA |
| HERV-Fc1_LTR1 | Klf6-7-like | 160 | 179 | + | 17.99 | CCCTACCCCGCCCACTCCTC |
| HERV-Fc1_LTR1 | KLF10 | 154 | 162 | - | 17.88 | GGGGCGGGG |
| HERV-Fc1_LTR1 | SP1 | 154 | 162 | - | 17.80 | GGGGCGGGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
