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 | Dux | 901 | 911 | + | 15.75 | AGATTAAATCA |
| Helitron1Nb_Mam | Gfi1B | 906 | 915 | + | 15.71 | AAATCACTGC |
| Helitron1Nb_Mam | KLF6 | 45 | 53 | - | 15.53 | CCACGCCCA |
| Helitron1Nb_Mam | ZNF652 | 711 | 719 | + | 15.51 | AAGAGTTAA |
| Helitron1Nb_Mam | MLX | 56 | 65 | + | 15.41 | TTCACGTGAT |
| Helitron1Nb_Mam | MLX | 99 | 108 | - | 15.41 | TTCACGTGAT |
| Helitron1Nb_Mam | PK06182.1 | 153 | 160 | - | 15.27 | TACCTACC |
| Helitron1Nb_Mam | luna | 46 | 54 | - | 15.26 | ACCACGCCC |
| Helitron1Nb_Mam | Klf3/8/12 | 46 | 54 | - | 15.24 | ACCACGCCC |
| Helitron1Nb_Mam | BIM1 | 100 | 107 | + | 15.05 | 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.
