AmnHarb1
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001731 |
|---|---|
| TE superfamily | Harbinger |
| TE class | DNA |
| Species | Amniota |
| Length | 1444 |
| Kimura value | 32.87 |
| Tau index | 0.0000 |
| Description | AmnHarb1 subfamily |
| Comment | 21 bp TIRs. |
| Sequence |
AGGGNTGCGTTTTCAAAGCTTTATGTGCCACATGCGCATATAAAAACCAGGAAATGNGAATGCGTATGCACTGCACACGGAATTAGACACACATGACATATGTAAGCATTTTTAAAACGGGTGCAAATATGTACGTGCATGTACGCATGACTATTTCTGCACCTTGCAAAAATGGGCGGAGAGTGGGTGGAGCTACGATTATAGTCGCGCATTTGTAATTTTCAAAGGAAAATTGTGTGGGCAGCTTCCATTATGCCCGGGCAAATTTAGACGAATGAAAGCGTCGACTAAGTAATTNTTGATATTATATATGTGTATAAATTAAAGCAGGAAAGCCTCTAGTCACTCATTTTAGCTGCTAAAATGCCTCTAGGGGTTTGGATTAGAAGGAGGAGGACCCTTANAAGGATCAGAAGGCAATATCCCACGGGGGCAAATTGATACGTAGGAATACAGTAGCTATTCCTTTTTGGACCTCGCAGAGGAACAAGTTTTAGATAAANATACGACAAACAGACCATTTTGGATCTCTGTAAGAAGATTTGAAAAGTCAAACACACAGGAGCCATGCTTTACCTGTAATGGTAAAAATTACATCATCCGTAACCTTTTNAGCAACAGGCTTATTTCAAACAACAGTAACTTACAGATGCTATTCTAAGGAGAACCAGTCACTATATTTGTTTTCCTTTTGATATACAGCTGCAATAGCAAGCCATGCATGAATTTTATTAAGNCNTGATAATNTTCTATCAGTTCTAGGAGCTATAGANTGAACCCATATAGATAACTGGCTCAGCCTCAAAATGATAAACATGTCAAGATATGAAAATCATTTCATTCCTTAAAAATGAAATGAAGATGTGATTTGAAATGTCATGCTTTGGATGTATGAGCAANATTCCTATAATCAATCATCCAAAATAAACTGTATTATTTAGGAGCTATTTGAAGGCAGACAAGCTGAAAACATGTGTTTAAACATGCCAAACATGTTTAGAGTATCTCCTAAACATCTATATTACTTTTTCATACATACGTGTTGATTNTTGTTTCATATTTAGGGTTATTTACCTTACAAAGTAACTCAATACAATGAGCACACACTGCAAAACACTATAGAAAGGGAGTGTTTACATATGCTAATGACTTCCATNTAAGGAGCGCGTGACTAAGAGCTGAGAGAATGCGCGACTAAAACTGCCCGCTAGAAATCTTTGAAGATTCCCAGAAAAACTAGACGCGCAGGAAATGCCTGGTTGCTAGCATAACTGGTCGCGCAAATTTGCGCGGNCAGATANACAGATTTTCANNACTCATTTCACGNCTGTTACATCCTTTGAAAATANGGCAGTTTTTTCGGNTGCGCGCAGTTGCGCATCCGANACACATGCTAGTCGGGCAAAATGACTTGCCCGCGATTTTTTGAATATCTAGCCCTATG
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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 |
|---|---|---|---|---|---|---|
| AmnHarb1 | ZSCAN4 | 1099 | 1113 | + | 20.19 | AGCACACACTGCAAA |
| AmnHarb1 | tll | 546 | 555 | + | 17.07 | AAAAGTCAAA |
| AmnHarb1 | POU2F2 | 1138 | 1150 | + | 16.92 | ATATGCTAATGAC |
| AmnHarb1 | POU3F2 | 1138 | 1149 | + | 16.77 | ATATGCTAATGA |
| AmnHarb1 | crc | 591 | 601 | - | 16.48 | GATGATGTAAT |
| AmnHarb1 | WRKY50 | 546 | 554 | - | 16.45 | TTGACTTTT |
| AmnHarb1 | WRKY45 | 546 | 555 | + | 16.38 | AAAAGTCAAA |
| AmnHarb1 | Stat5b | 1225 | 1233 | + | 16.36 | TTCCCAGAA |
| AmnHarb1 | AGL6 | 573 | 591 | + | 15.92 | TTACCTGTAATGGTAAAAA |
| AmnHarb1 | JUND | 591 | 601 | - | 15.87 | GATGATGTAAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
