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 | YAP7 | 563 | 573 | + | 14.47 | ATGAGTCAGCA |
| L3b_3end | Jun | 563 | 570 | - | 14.31 | TGACTCAT |
| L3b_3end | ZHD6 | 769 | 780 | + | 14.30 | AAAAATGATTAA |
| L3b_3end | ROX1 | 940 | 951 | - | 14.29 | CCTCTTGTTCTG |
| L3b_3end | ZKSCAN5 | 646 | 654 | + | 14.28 | GGAGGTGAT |
| L3b_3end | ERF025 | 631 | 638 | + | 14.28 | CGCCGACA |
| L3b_3end | AT3G10030 | 618 | 625 | + | 14.25 | TTAACAGA |
| L3b_3end | MSC | 912 | 921 | - | 14.20 | AACAGCTGGT |
| L3b_3end | FOS | 563 | 570 | - | 14.19 | TGACTCAT |
| L3b_3end | ERF037 | 630 | 638 | + | 14.18 | TCGCCGACA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
