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 | Dmrt1 | 1077 | 1085 | + | 14.85 | TACAAAGTA |
| AmnHarb1 | PBX1 | 910 | 918 | + | 14.71 | ATCAATCAT |
| AmnHarb1 | NRG1 | 395 | 402 | - | 14.66 | AAGGGTCC |
| AmnHarb1 | Nr2e1 | 546 | 554 | + | 14.59 | AAAAGTCAA |
| AmnHarb1 | dsf | 546 | 553 | + | 14.52 | AAAAGTCA |
| AmnHarb1 | POU3F1 | 1138 | 1147 | + | 14.46 | ATATGCTAAT |
| AmnHarb1 | OSR1 | 453 | 460 | - | 14.45 | GCTACTGT |
| AmnHarb1 | TBF1 | 1061 | 1068 | - | 14.43 | AACCCTAA |
| AmnHarb1 | Yy1 | 518 | 525 | - | 14.43 | CAAAATGG |
| AmnHarb1 | ZmbZIP57 | 591 | 600 | - | 14.40 | ATGATGTAAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
