L1MB7_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000273 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Eutheria |
| Length | 931 |
| Kimura value | 19.40 |
| Tau index | 0.6940 |
| Description | 3' end of L1 retrotransposon, L1MB7_3end subfamily |
| Comment | ORF2 ends at bp ~675 |
| Sequence |
CTTGTATCCAGAATATATAAAGAACTCTTACAACTCAACAATAAAAAGACAAATAACCCAATTNAAAAATGGGCAAAGGATTTGAATAGACATTTCTCCAAAGAAGATATACAAATGGCCAATAAGCACATGAAAAGATGCTCAACATCATTAGTCATTAGGGAAATGCAAATCAAAACCACAATGAGATACCACTTCACACCCACTAGGATGGCTATAATNAAAAAGACAGACAATAACAAGTGTTGGCGAGGATGTGGAGAAATTGGAACCCTCATACATTGCTGGTGGGAATGTAAAATGGTGCAGCCGCTTTGGAAAACAGTTTGGCAGTTCCTCAAAAAGTTAAACATAGAGTTACCATATGACCCAGCAATTCCACTCCTAGGTATATACCCAAGAGAANTGAAAACATATGTCCACACAAAAACTTGTACACGAATGTTCATAGCAGCATTATTCATAATAGCCAAAAAGTGGAAACAACCCAAATGTCCATCAACTGATGAATGGATAAACAAAATGTGGTATATCCATACAATGGAATATTATTCGGCCATAAAAAGGAATGAAGTACTGATACATGCTACAACATGGATGAACCTTGAAAACATTATGCTAAGTGAAAGAAGCCAGACACAAAAGGCCACATATTGTATGATTCCATTTATATGAAATGTCCAGAATAGGCAAATCCATAGAGACAGAAAGTAGATTAGTGGTTGCCAGGGGCTGGGGGGAGGGGGGAATGGGGAGTGACTGCTAATGGGTACGGGGTTTCTTTTTGGGGTGATGAAAATGTTCTGGAATTAGATAGTGGTGATGGTTGCACAACTCTGTGAATATACTAAAAACCACTGAATTGTACACTTTAAAAGGGTGAATTTTATGGTATGTGAATTATATCTCAATAAAGCTGTTATTTTAAAAA
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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 |
|---|---|---|---|---|---|---|
| L1MB7_3end | ZNF8 | 520 | 539 | - | 33.48 | GTATGGATATACCACATTTT |
| L1MB7_3end | ZNF140 | 368 | 386 | - | 31.44 | AGGAGTGGAATTGCTGGGT |
| L1MB7_3end | ZNF281 | 736 | 745 | + | 20.07 | GGGGGAGGGG |
| L1MB7_3end | ZNF148 | 736 | 745 | - | 18.97 | CCCCTCCCCC |
| L1MB7_3end | PATZ1 | 736 | 746 | + | 18.83 | GGGGGAGGGGG |
| L1MB7_3end | PRDM9 | 734 | 753 | + | 18.39 | TGGGGGGAGGGGGGAATGGG |
| L1MB7_3end | IDD4 | 41 | 55 | + | 17.45 | ATAAAAAGACAAATA |
| L1MB7_3end | GAF1 | 40 | 54 | + | 17.32 | AATAAAAAGACAAAT |
| L1MB7_3end | MGP | 43 | 55 | + | 17.20 | AAAAAGACAAATA |
| L1MB7_3end | cad | 555 | 565 | + | 16.78 | GGCCATAAAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
