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 | TGIF1 | 94 | 105 | - | 2.71 | TTACATATGTCA |
| AmnHarb1 | PAX9 | 712 | 727 | - | 1.53 | ATTCATGCATGGCTTG |
| AmnHarb1 | TP63 | 813 | 830 | + | -1.31 | AACATGTCAAGATATGAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
