X9b_DNA
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001146 |
|---|---|
| TE superfamily | Tigger |
| TE class | DNA |
| Species | Mammalia |
| Length | 1018 |
| Kimura value | 32.88 |
| Tau index | 0.9816 |
| Description | Putative TcMar-Tigger DNA transposon, X9b_DNA subfamily (non-autonomous) |
| Comment | Incomplete reconstruction. Found in placental and marsupial mammals; uncertain identification in platypus. |
| Sequence |
TACTCAGAACCCTCAAGTAATTNCGGCAAAGTCGGAANTNCAGATTAAAAGCTGAAGAGAGCCTGCGNAGCCCAGAAGACCCAAAGATCTGCATTCAAAAGCTGCCTGTCTGAAGCCTTCAGACAAAAGAAAAAAGCTTCAGAAGTCACTTTGAAAGACTTTACATATGTTAATTACAGCCATCAAGGGTCATAAAGCAGGGAAGAGAAACCTCGGTCTGAGGCTATGCCGGTCCACAGCAAGTACAGTAAAATCTTTGTTATCTGGGGGGTGCAGGTTAGGTTAACTAAAAGTTTTATTTAACCCATTTACCTGTCATTTCCCAAGAACTTCTGAAGCTTTCTGCTTTCTACCTCTGTGCTTTCAACCTATAGAAACTACAGTTTTGATCTGAGGAAAAAAATTGATTCAGCCTCTAGTCTAGGTTTATTCTGCTAGCTAAGAGATCCAGAGGCAACTTCAGATTTACATTTCTATCACTGCCTCTCTAAACCTGATTACTTTAACAAGTACTTTCCAATTGCCCCATTGTTTTTCAGAACCACCTCTAGCTTCTTACATTTCTAATCAAACTTTATTTTTGAAATACCTGTCATTTCTCATGGACTTCTGAAGCTTTCTGCTTTCTACCTGTGTGAAGTTTTGGGGAAAGATTTTATTTTTCCCTCTAGGTTTATTCTGCTTAGCTAAAGTCATCAGAGACAACTTTAACTTTGTATTTTTATGAGGCCTCTTTCAAAGTGTGTTGACACTGCGGTTGATGGTCTGGTTACTAGATTGAAGATTTGTGGTTGGTAAAGTGCTGTATTTCTAAAAATACATAATTGAGAGATCAACCAATACAATTGTGCACACCTGAAAGAAGATTCCAGAGGCACAGGTCCCTATATCCTATGCAGGGGCGTCCTTGCCTCGGGCAGTTTCACTGCATAAATGGGTTAACCCTCAGTTAACCAGAAAATTCAGTTAACCAGAACACCCCATTCCCCGANCATTCTAGTTAACTGAGGTTTTACTG
|
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 |
|---|---|---|---|---|---|---|
| X9b_DNA | BPC6 | 476 | 496 | + | -3.04 | ATCACTGCCTCTCTAAACCTG |
| X9b_DNA | BPC6 | 474 | 494 | + | -3.64 | CTATCACTGCCTCTCTAAACC |
| X9b_DNA | Rarg | 301 | 315 | - | -3.83 | CAGGTAAATGGGTTA |
| X9b_DNA | Rarb | 301 | 316 | - | -5.21 | ACAGGTAAATGGGTTA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
