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 | ZNF257 | 905 | 914 | - | 14.22 | GAGGCAAGGA |
| X9b_DNA | TfAP-2 | 910 | 918 | - | 14.21 | GCCCGAGGC |
| X9b_DNA | HSFB4 | 862 | 871 | + | 14.21 | GAAGATTCCA |
| X9b_DNA | POU2F2 | 165 | 177 | + | 14.19 | ATATGTTAATTAC |
| X9b_DNA | GT-1 | 949 | 956 | + | 14.16 | GTTAACCA |
| X9b_DNA | GT-1 | 966 | 973 | + | 14.16 | GTTAACCA |
| X9b_DNA | TfAP-2 | 910 | 918 | + | 14.16 | GCCTCGGGC |
| X9b_DNA | HSF4 | 862 | 874 | - | 14.13 | CTCTGGAATCTTC |
| X9b_DNA | VIT_17s0000g10420 | 949 | 956 | + | 14.13 | GTTAACCA |
| X9b_DNA | VIT_17s0000g10420 | 966 | 973 | + | 14.13 | GTTAACCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
