Basic Information
VIS ID
TVIS30004041
Fusion event
HIV-BRAF integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr7
Cytoband
q34
Reference genome
GRCh37/hg19
Start
140548800/140849000 (Hg38)
End
140548800/140849000 (Hg38)
Orient
+
Location type
Intronic
Target gene
BRAF
miRNAs that regulate target gene
hsa-mir-744-5p ; hsa-mir-378a-5p ; hsa-mir-191-5p ; hsa-mir-143-3p ; hsa-mir-145-5p ; hsa-mir-579-3p
Nearest miRNA
hsa-mir-10399/Upstream/1804843; hsa-mir-11400/Downstream/1625527;
Nearest TSS
ENST00000635602/Upstream/12767; ENST00000563442/Downstream/75703;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/151516, chr7-CpG: 90/Downstream/75197
Nearest cancer related gene
BRAF(OG, No orient, 0)
Upstream sequence
ACTTCAGAAATATAAACTTAACTTTCTCATAAAATCCTTAAGACTTAACTGGCCCTTCAAAAAGTAATTAAATTACTAAGTTACAAATTTAGTTCAGAAG
Downstream sequence
TCTTTCAATCTGTGCTTAAAAATCTCTGGTATTTGGAGCCAAATGGCAACCTGATCATTTCTAATTTAGAGTTCTCCATCTCCTTGCCTCACTAGTGATG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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