Basic Information
VIS ID
TVIS30002675
Fusion event
HIV-GGNBP2 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
chr17
Cytoband
q12
Reference genome
GRCh37/hg19
Start
34939158/36582728 (Hg38)
End
34939158/36582728 (Hg38)
Orient
+
Location type
Intronic
Target gene
GGNBP2
Nearest miRNA
hsa-mir-1180/Upstream/4232526; hsa-mir-10226/Downstream/451017;
Nearest TSS
ENST00000595228/Upstream/6071; ENST00000612563/Downstream/3165;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/37127, chr17-CpG: 95/Downstream/8895
Nearest cancer related gene
GGNBP2(TSG, No orient, 0)
Upstream sequence
CAGCTTTTTTCCTACTGTAGTCTGTATAAGCCAGAATTTTAATGTCATGTCTATGTTTTATTAAGACAATGTTGAGTAGTTATCTCTTTACCTGACTTTA
Downstream sequence
ATGTATTATTAGATCAAAGTCAAAATATAGAAAGCCACCTCTGTGCATGACCTAGagcagttctcaagtttttggtcttaggatccctttacattcttaa
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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