THE1B
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000818 |
|---|---|
| TE superfamily | MaLR |
| TE class | LTR |
| Species | Haplorrhini |
| Length | 364 |
| Kimura value | 9.49 |
| Tau index | 0.8640 |
| Description | THE1B Long Terminal Repeat for ERVL-MaLR endogenous retrovirus |
| Comment | An LTR of the THE1B retrovirus-like MaLR element. Has 5 bp TSDs. This subfamily is an intermediate between THE1A and THE1C, and is 90% similar to both over the entire length. |
| Sequence |
TGATATGGTTTGGCTGTGTCCCCACCCAAATCTCATCTTGAATTGTAGCTCCCATAATTCCCACGTGTCGTGGGAGGGACCCGGTGGGAGGTAATTGAATCATGGGGGCGGGTCTTTCCCGTGCTGTTCTCGTGATAGTGAATAAGTCTCACGAGATCTGATGGTTTTATAAAGGGGAGTTCCCCTGCACANGCTCTCTTGCCTGCCGCCATGTAAGACGTGNCTTTGCTCCTCCTTCGCCTTCCGCCATGATTGTGAGGCCTCCCCAGCCACGTGGAACTGTGAGTCCATTAAACCTCTTTCCTTTATAAATTACCCAGTCTCGGGTATGTCTTTATCAGCAGCGTGAAAACGGACTAATACA
|
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 |
|---|---|---|---|---|---|---|
| THE1B | NFKB2 | 175 | 185 | + | 14.74 | GGGAGTTCCCC |
| THE1B | OJ1058_F05.8 | 61 | 68 | - | 14.66 | ACACGTGG |
| THE1B | Os05g0437700 | 61 | 68 | + | 14.66 | CCACGTGT |
| THE1B | EREB138 | 203 | 212 | + | 14.65 | CTGCCGCCAT |
| THE1B | KLF1 | 20 | 27 | - | 14.64 | GGGTGGGG |
| THE1B | PK24205.1 | 269 | 276 | - | 14.62 | CACGTGGC |
| THE1B | mxl-3 | 270 | 277 | + | 14.59 | CCACGTGG |
| THE1B | mxl-3 | 270 | 277 | - | 14.59 | CCACGTGG |
| THE1B | SP3 | 104 | 114 | - | 14.58 | GACCCGCCCCC |
| THE1B | NFKB2 | 175 | 185 | - | 14.56 | GGGGAACTCCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
