L3b_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000363 |
|---|---|
| TE superfamily | CR1 |
| TE order | 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 | Bach1::Mafk | 562 | 573 | + | 15.07 | TATGAGTCAGCA |
| L3b_3end | TAL1::TCF3 | 912 | 921 | + | 15.03 | ACCAGCTGTT |
| L3b_3end | Spi1 | 945 | 957 | + | 15.02 | CAAGAGGAAATGG |
| L3b_3end | TFAP4 | 912 | 921 | + | 14.96 | ACCAGCTGTT |
| L3b_3end | ERF021 | 631 | 638 | + | 14.75 | CGCCGACA |
| L3b_3end | ZNF547 | 611 | 623 | - | 14.74 | TGTTAATGCAGCC |
| L3b_3end | TAL1::TCF3 | 912 | 921 | - | 14.71 | AACAGCTGGT |
| L3b_3end | TFAP4 | 912 | 921 | - | 14.67 | AACAGCTGGT |
| L3b_3end | MEF2C | 1081 | 1091 | + | 14.54 | TTAAAAATAGA |
| L3b_3end | AGL27 | 1176 | 1189 | + | 14.51 | CTTTCCAATTCTGA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
