L3b_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000363 |
|---|---|
| TE superfamily | CR1 |
| TE class | LINE |
| Species | Mammalia |
| Length | 1206 |
| Kimura value | 38.25 |
| Tau index | 0.9601 |
| Description | CR1 (Chicken Repeat 1) retrotransposon, L3b_3end subfamily |
| Comment | This represents an alternative 3' end for L3 elements. |
| Sequence |
ATTTCCTCNTAAGATAAAGCCGCTANACTAGCAGATCAGGGGAATNCCATAGACATAGTGTATCTTGATTTCAGCAAGGCATTTGACAAAGTCTCTCGTGATATCCTCGTGGACAAGACGGAGAAATGTGGGCTGGANAATGGTCAGTTAGACATTCNTAGCTGGTTGAACAACCGNACCCAAAGGACGTTGATNAATGGNTCGATGTCAACCTGGAGGGAGTCTCTAGTGGCGTGCCGCAGGGCTCTGTCCTTGGCCTTGTCCTGTCTGAATTTGTATCAATGACTTGGATGAAGATACGGAAAGCAGCTTATCAAATTTGCNAGTGGCAGAAGCTGGGAGCGACGGCTAATACGTTGGATGCAAAATCAGGATCCAAAACGATCTCGACAGACTAGAACGNCGGGCCGAANCCAACAAGATGAAATTCAACAGGGATAAACGTAAAGTCCTGCACTTGGGTTCAAAAAANCAATCGCGCGAGTACAGGATGGGGGAGACGCGGCTTAGCAGCAGCNCATGTGAAAAAGACCTGGGGGTTTTAGTTGACCGCAAGCTCAATATGAGTCAGCAGTGCGACGCGGCTGCCAAAAAAGCTAATGCGATCTTGGGCTGCATTAACAGAAGNATCGCCGACAGANCAAGGGAGGTGATNNTCCCGCTCTACTCTGCGCTGGTCAGGCCNCANCTGGAGTACTGCGTTCAGTTCTGGGCNCCACANTTTAAAAGGGACGTGGAGAANTTGGAGAGAGTTCAGAGGAGAGCAACAAAAATGATTAAAGGGCTGGAAAATGGGACCTATGAGGAAAGGTTAAAGGAACTGGGATTATTCAGCCTGGAGAAGAGAAGGCTGAGGGGNGACTTAATAACNGTCTTCAAGTATATGAAGGGTTATTACGTAGAGGACGGTGACCAGCTGTTCTCCATCTCCACTGAGGACAGAACAAGAGGAAATGGGCTTAAACTGCAGCATGAGGGATTTAGGTTAGATATAAGGAAGAACTTCCTGACAGTGAGAGTTGTTAAACACTGGAATGGGTTACCGAGGGAGGTTGCGGAATCTCCTTCTCTGGAGAGNCTTTAAAAATAGAACGGATTCTCATCTGTCTGGGATGACTTAAAGGCAGTCCTGCCTAGAGCTAGGGGNAGGGATGGACTAGATGACCTCTGAGGTCCTTTCCAATTCTGAGATTCTATGGTTTTAAA
|
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 |
|---|---|---|---|---|---|---|
| L3b_3end | Prdm5 | 919 | 929 | + | 18.28 | GTTCTCCATCT |
| L3b_3end | MAF::NFE2 | 563 | 573 | + | 17.74 | ATGAGTCAGCA |
| L3b_3end | MAFG::NFE2L1 | 563 | 573 | + | 17.52 | ATGAGTCAGCA |
| L3b_3end | Nfe2l2 | 563 | 573 | + | 17.38 | ATGAGTCAGCA |
| L3b_3end | Tcf21 | 912 | 921 | - | 16.22 | AACAGCTGGT |
| L3b_3end | NAC094 | 108 | 123 | - | 16.03 | CTCCGTCTTGTCCACG |
| L3b_3end | MSC | 912 | 921 | + | 15.77 | ACCAGCTGTT |
| L3b_3end | NR6A1 | 248 | 261 | - | 15.71 | CAAGGCCAAGGACA |
| L3b_3end | GRF4 | 510 | 517 | + | 15.23 | GCAGCAGC |
| L3b_3end | Tcf21 | 912 | 921 | + | 15.22 | ACCAGCTGTT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
