THE1A
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000005 |
|---|---|
| TE superfamily | MaLR |
| TE class | LTR |
| Species | Haplorrhini |
| Length | 355 |
| Kimura value | 7.51 |
| Tau index | 0.8500 |
| Description | Long terminal repeat (THE1A subfamily) |
| Comment | The LTR of THE1A retrovirus-like MaLR element. Has 5bp TSDs. This entry shows ~90% full-length similarity to THE1B. |
| Sequence |
TGATATGGTTTGGCTGTGTCCCCACCCAAATCTCAACTTGAATTGTATCTCCCAGAATTCCCACGTGTTGTGGGAGGGACCCAGGGGGAGGTAATTGAATCATGGGGGCCGGTCTTTCCCGTGCTATTCTCGTGATAGTGAATAAGTCTCACGAGATCTGATGGGTTTATCAGGGGTTTCCGCTTTTGCTTCTTCCTCATTTTCCTCTTGCCGCCGCCATGTAAGAAGTGCCTTTCGCCTCCCGCCATGATTCTGAGGCCTCCCCAGCCATGTGGAACTGTAAGTCCAATTAAACCTCTTTTTCTTCCCAGTCTCGGGTATGTCTTTATCAGCAGCGTGAAAACGGACTAATACA
|
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 |
|---|---|---|---|---|---|---|
| THE1A | ERF087 | 209 | 218 | - | 14.79 | GGCGGCGGCA |
| THE1A | CRF4 | 211 | 220 | + | 14.67 | CCGCCGCCAT |
| THE1A | OJ1058_F05.8 | 61 | 68 | - | 14.66 | ACACGTGG |
| THE1A | Os05g0437700 | 61 | 68 | + | 14.66 | CCACGTGT |
| THE1A | KLF1 | 20 | 27 | - | 14.64 | GGGTGGGG |
| THE1A | EmBP-1 | 61 | 68 | - | 14.49 | ACACGTGG |
| THE1A | ERF115 | 208 | 218 | + | 14.45 | TTGCCGCCGCC |
| THE1A | RAP2-12 | 211 | 221 | - | 14.39 | CATGGCGGCGG |
| THE1A | ERF109 | 211 | 218 | + | 14.36 | CCGCCGCC |
| THE1A | Mnt | 61 | 67 | + | 14.31 | CCACGTG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
