Helitron1Nb_Mam
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000158 |
|---|---|
| TE superfamily | Helitron-1 |
| TE class | RC |
| Species | Eutheria |
| Length | 1116 |
| Kimura value | 28.27 |
| Tau index | 0.0000 |
| Description | Helitron DNA transposon, Helitron1Nb_Mam subfamily |
| Comment | Helitrons are thought to transpose with a rolling circle mechanism, and represent a distinct class of DNA transposon. Helitron1Nb_Mam represents a non-autonomous helitron fossil found broadly in mammals. Helitron1Nb_Mam is identical to Helitron1Na_Mam except over the region 696-913 in "1Nb" and 696-859 in "1Na", where they are unrelated. |
| Sequence |
TCTATCTATATAAAACACTTAGGTATGTTTCCCCAAGGTTCAGCTGGGCGTGGTTTTCACGTGATCACTCCAGCCAATGAACGCGCAAGCATCCAGTGATCACGTGAAAACCACGCCTGTTAATTTATAAATGTTGACACTGACAGGTGACAGGTAGGTAGTGACTGTTTATAAGAATTGTATGCATTTCTGAGCATTTATTTACTTAATCTTTTTAAAATTAAGCTTAGAATTTCTACAACGTGTAACGTTAAACATGTGTCACCTATTTTGAACTTAATACAGTGCATAAAAGTATTTATAAGAATTGTATGCATTTCTGAGCATTTATTTACTTAATCAAAAATTTTATGCGTTTTGAGCATTTATTTACTTAATCAAAGGTTTAAAAGTTTTAAGAAGTATAAAAATGGCTGAACCATGTGTAAGAACTCTGAGAAACCATAGAAGAAATGCTAATGAAACATTAGAGGAGAGATCAAATAGACTACGAGACCGAAATGAAACTCTACGATGACGAAGACGGACAGAGAACACTGAAGAAAGAGAAGAACGATTGGAAATGAGAAGAAAAAGAGCGAAACGCCTAGGACTAATCAAATAGAAGTACCGGATGCGAATAATCAACAAGCTGTAATCAANTGTGGAAGAGCATAACATAGGAAATATGTGTTACAACTGTGAGCACTGCAATGCAAGATATTGGGGACAAGAGTTAAACACATCGAATAAATACACTAAATGCTGTCACGATGGAAAGGTTTCACTCGACCCACTGTCTGAGACACCTACTCTATTATAAGAGCTGCTTNCAGGGAATACATGCGAAGAAACAAAAAACTCACAGAGAACATATACGAGAGCGNAACTCAGCAATGGCGTTCACATCAGTGGGCGCNGAGATTAAATCACTGCCNGTATTTAGTCACGGACAACTATATGTTGCTCTCTCAAGAGTTCGATCATTGGACTCATTAAGTGTTGTATCTGAGAAGAATAAGATTGTTAATTGTGTTTACAATGAAATATATGAATAAATAAATAAAATGCGTTAATATTTTATTAATAACTATTAAGATCTGCTAGAACGGCGTATGTTACGCCGGGTACAGCTAG
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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 |
|---|---|---|---|---|---|---|
| Helitron1Nb_Mam | BIM1 | 100 | 107 | - | 15.05 | TCACGTGA |
| Helitron1Nb_Mam | BIM1 | 57 | 64 | + | 15.05 | TCACGTGA |
| Helitron1Nb_Mam | BIM1 | 57 | 64 | - | 15.05 | TCACGTGA |
| Helitron1Nb_Mam | Fer2 | 143 | 152 | + | 14.84 | ACAGGTGACA |
| Helitron1Nb_Mam | bHLH18 | 101 | 115 | - | 14.79 | CGTGGTTTTCACGTG |
| Helitron1Nb_Mam | bHLH18 | 49 | 63 | + | 14.79 | CGTGGTTTTCACGTG |
| Helitron1Nb_Mam | ETS2 | 609 | 617 | + | 14.78 | ACCGGATGC |
| Helitron1Nb_Mam | ZNF547 | 454 | 466 | + | 14.77 | TGCTAATGAAACA |
| Helitron1Nb_Mam | hlh-30 | 100 | 107 | + | 14.75 | TCACGTGA |
| Helitron1Nb_Mam | hlh-30 | 100 | 107 | - | 14.75 | TCACGTGA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
