LTR10F
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000397 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Catarrhini |
| Length | 511 |
| Kimura value | 6.02 |
| Tau index | 0.8392 |
| Description | LTR10F (Long Terminal Repeat) for HERVIP10F endogenous retrovirus |
| Comment | LTR10F is a long terminal repeat of the HERVIP10F endogenous retrovirus. Its very close subfamily flanks also the HERVIP10FH non-autonomous retrovirus. |
| Sequence |
TGTTAGATATGAGTTCTAAATTTCTCTTCAAAGAATCAATATGTCAGTATGTTCAATTCTTTGCCTTCTACTTTTAAACTTAACTTCCTCGTAAAGCAACCTTTTTCGATTACCTGCTCCACCCTGACTCATTCCGATTACCTGCTCCACCCTGACTCATTCCGATTACCTGCCACCTGCTCCGCCCTGACTCATTCATTCTCCGCCCTGCATAACCATTTTTNNNNCCCGCCAAACCACTCACCCCGTCACTCTCTTTAAATTAGCCAATCGGAATTAGTTTAGCCTGTGCGGTCTAACCCTAGCCAATAGGGGAACGACACAGCAGCAGGGGCCACGTGCGTCAGGGATAAGAACCCCTTCCCCTCCCTTGTCCAAGTGTGCGCTCACCATTGCTCCATCTGTAAGGGCGCACCCTTCTATAGAAGTANCTTGCCTTGCTGAGAATTAAAAAGAAAATTTTATATTCGAGTGCTATTTCTTTTGCGGCACCGAAACTTTATNTATAACA
|
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 |
|---|---|---|---|---|---|---|
| LTR10F | IRF6 | 491 | 499 | + | 16.60 | ACCGAAACT |
| LTR10F | ZNF24 | 189 | 201 | + | 16.26 | GACTCATTCATTC |
| LTR10F | MAZ | 363 | 370 | + | 16.08 | CCCCTCCC |
| LTR10F | DOF5.8 | 58 | 76 | + | 15.74 | TCTTTGCCTTCTACTTTTA |
| LTR10F | bHLH77 | 331 | 342 | + | 15.48 | GGGGCCACGTGC |
| LTR10F | KLF17 | 236 | 249 | + | 15.43 | ACCACTCACCCCGT |
| LTR10F | PK09702.1 | 335 | 342 | - | 15.43 | GCACGTGG |
| LTR10F | BHLH72 | 334 | 342 | + | 15.26 | GCCACGTGC |
| LTR10F | PK05451.1 | 335 | 342 | + | 15.05 | CCACGTGC |
| LTR10F | MYC | 335 | 342 | + | 14.93 | CCACGTGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
