LTR5_Hs
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000558 |
|---|---|
| TE superfamily | ERV2 |
| TE class | LTR |
| Species | Hominoidea |
| Length | 968 |
| Kimura value | 3.06 |
| Tau index | 0.9573 |
| Description | LTR5_Hs (Long Terminal Repeat) for ERVK endogenous retrovirus |
| Comment | A HERVK LTR (youngest subfamily < 1% div). |
| Sequence |
TGTGGGGAAAAGCAAGAGAGATCAGATTGTTACTGTGTCTGTGTAGAAAGAAGTAGACATAGGAGACTCCATTTTGTTCTGTACTAAGAAAAATTCTTCTGCCTTGAGATTCTGTTAATCTATAACCTTACCCCCAACCCCGTGCTCTCTGAAACATGTGCTGTGTCAACTCAGGGTTAAATGGATTAAGGGCGGTGCAAGATGTGCTTTGTTAAACAGATGCTTGAAGGCAGCATGCTCCTTAAGAGTCATCACCACTCCCTAATCTCAAGTACCCAGGGACACAAAAACTGCGGAAGGCCGCAGGGACCTCTGCCTAGGAAAGCCAGGTATTGTCCAAGGTTTCTCCCCATGTGATAGTCTGAAATATGGCCTCGTGGGAAGGGAAAGACCTGACCGTCCCCCAGCCCGACACCCGTAAAGGGTCTGTGCTGAGGAGGATTAGTAAAAGAGGAAGGAATGCCTCTTGCAGTTGAGACAAGAGGAAGGCATCTGTCTCCTGCCCGTCCCTGGGCAATGGAATGTCTCGGTATAAAACCCGATTGTATGTTCCATCTACTGAGATAGGGAAAAACCGCCTTAGGGCTGGAGGTGGGACATGCGGGCAGCAATACTGCTTTGTAAAGCATTGAGATGTTTATGTGTATGCATATCTAAAAGCACAGCACTTAATCCTTTACCTTGTCTATGATGCAAAGACCTTTGTTCACGTGTTTGTCTGCTGACCCTCTCCCCACNATTGTCTTGTGACCCTGACACATCCCCCTCTCCGAGAAACACCCACGAATGATCAATAAATACTAAGGGAACTCAGAGGCTGGCGGGATCCTCCATATGCTGAACGCTGGTTCCCCGGGTCCCCTTATTTCTTTCTCTATACTTTGTCTCTGTGTCTTTTTCTTTTCCAAGTCTCTCGTTCCACCTNACGAGAAACACCCACAGGTGTGGAGGGGCAACCCACCCCTTCA
|
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 |
|---|---|---|---|---|---|---|
| LTR5_Hs | TFAP2C | 576 | 586 | - | 13.84 | GCCCTAAGGCG |
| LTR5_Hs | Zm00001d027846 | 896 | 903 | - | 13.75 | AAAGAAAA |
| LTR5_Hs | SCRT1 | 936 | 945 | + | 13.65 | CCCACAGGTG |
| LTR5_Hs | nhr-142 | 745 | 752 | - | 13.62 | GGTCACAA |
| LTR5_Hs | ZNF816 | 592 | 606 | + | 13.61 | GTGGGACATGCGGGC |
| LTR5_Hs | TFAP2A | 577 | 587 | - | 13.53 | AGCCCTAAGGC |
| LTR5_Hs | TYE7 | 707 | 713 | - | 13.51 | CACGTGA |
| LTR5_Hs | KLF7 | 190 | 197 | + | 13.49 | GGGCGGTG |
| LTR5_Hs | DREB2E | 573 | 582 | + | 13.48 | AACCGCCTTA |
| LTR5_Hs | gcm2 | 599 | 606 | + | 13.48 | ATGCGGGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
