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 | atfs-1 | 688 | 697 | + | 16.94 | ATGATGCAAA |
| LTR5_Hs | eor-1 | 885 | 897 | - | 16.34 | AAAGACACAGAGA |
| LTR5_Hs | SPIC | 447 | 459 | + | 16.32 | AAAAGAGGAAGGA |
| LTR5_Hs | DYT1 | 707 | 720 | - | 16.10 | AGACAAACACGTGA |
| LTR5_Hs | CG12605 | 937 | 945 | - | 15.49 | CACCTGTGG |
| LTR5_Hs | ZNF549 | 603 | 610 | - | 15.24 | TGCTGCCC |
| LTR5_Hs | NDT80 | 281 | 289 | + | 15.06 | GACACAAAA |
| LTR5_Hs | Klf15 | 750 | 771 | + | 14.51 | ACCCTGACACATCCCCCTCTCC |
| LTR5_Hs | Sox11 | 701 | 708 | - | 14.51 | GAACAAAG |
| LTR5_Hs | TEAD4 | 518 | 525 | - | 14.45 | ACATTCCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
