Basic Information
VIS ID
TVIS30007060
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
34928872/36573033 (Hg38)
End
34928872/36573033 (Hg38)
Orient
-
Location type
Intronic
Target gene
GGNBP2
Nearest miRNA
hsa-mir-1180/Upstream/4222831; hsa-mir-10226/Downstream/460712;
Nearest TSS
ENST00000595228/Upstream/27529; ENST00000619573/Downstream/3624;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/27432, chr17-CpG: 95/Downstream/18590
Nearest cancer related gene
GGNBP2(TSG, No orient, 0)
Upstream sequence
aatttttgtgattggcttattttacttagccattatctaagacaatacttagataatgtctaagattcatctatgttgtagcatatgacaggattcccct
Downstream sequence
ctaaaagctgaataatgtcacaatactgtgacattatttaaaaatgggcagtgtcatagtatatgtgatattattcacttttcttttttctttttttttg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate