L1MB8_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000274 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Eutheria |
| Length | 925 |
| Kimura value | 19.49 |
| Tau index | 0.8421 |
| Description | 3' end of L1 retrotransposon, L1MB8_3end subfamily |
| Comment | ORF2 ends at bp ~675 |
| Sequence |
CTTGTATCCAGAATATATAAAGAACTCTTACAACTCAATAATAAAAAGACAAATAACCCAATTNAAAAATGGGCAAAGGATCTGAATAGACATTTCTCCAAAGAAGATATACAAATGGCCAATAAGCACATGAAAAGATGCTCAACATCATTAGTCATCAGGGAAATGCAAATCAAAACCACAATGAGATACCACTTCACACCCACTAGGATGGCTATAATCAAAAAGACAGATAATAACAAGTGTTGGCGAGGATGTGGAGAAATTGGAACCCTCATACACTGCTGGTGGGAATGTAAAATGGTGCAGCCGCTTTGGAAAACAGTCTGGCAGTTCCTCAAAAGGTTAAACATAGAGTTACCATATGACCCAGCAATTCCACTCCTAGGTATATACCCAAGAGAAATGAAAACATATGTCCACACAAAAACTTGTACACGAATGTTCATAGCAGCATTATTCATAATAGCCAAAAAGTGGAAACAACCCAAATGTCCATCAACTGATGAATGGATAAATAAAATGTGGTATATCCATACAATGGAATATTATTCGGCAATAAAAAGGAATGAAGTACTGATACATGCTACAACATGGATGAACCTTGAAAACATTATGCTAAGTGAAAGAAGCCAGTCACAAAAGACCACATATTGTATGATTCCATTTATATGAAATGTCCAGAATAGGCAAATCTATAGAGACAGAAAGTAGATTAGTGGTTGCCTAGGGCTGGGGGGAAGGGGGAATGGGGAGTGACTGCTAATGGGTACGGGGTTTCTTTTNGGGGTGATGAAAATGTTCTAAAATGATTGTGGTGATGGTTGCACAACTCTGTGAATATACTAAAAACCATTGAATTGTACACTTTAAATGGGTGAATTGTATGGTATGTGAATTATATCTCAATAAAGCTGTTAAAAAA
|
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 |
|---|---|---|---|---|---|---|
| L1MB8_3end | NEUROG1 | 411 | 420 | - | 15.45 | GACATATGTT |
| L1MB8_3end | NEUROG1 | 411 | 420 | + | 15.44 | AACATATGTC |
| L1MB8_3end | YAP7 | 150 | 160 | + | 15.32 | ATTAGTCATCA |
| L1MB8_3end | TBX20 | 195 | 205 | - | 15.14 | TGGGTGTGAAG |
| L1MB8_3end | Bcl11B | 176 | 184 | + | 15.12 | AAACCACAA |
| L1MB8_3end | Tbx6 | 196 | 204 | - | 14.98 | GGGTGTGAA |
| L1MB8_3end | CAD1 | 150 | 160 | - | 14.95 | TGATGACTAAT |
| L1MB8_3end | CDX4 | 556 | 564 | + | 14.91 | GCAATAAAA |
| L1MB8_3end | Nfe2l2 | 365 | 375 | + | 14.91 | ATGACCCAGCA |
| L1MB8_3end | DOF4.2 | 43 | 53 | + | 14.89 | AAAAAGACAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
