Basic Information
VIS ID
TVIS30008974
Fusion event
HIV-RANBP9 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
chr6
Cytoband
p23
Reference genome
GRCh37/hg19
Start
13699344/13699112 (Hg38)
End
13699344/13699112 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6A
Target gene
RANBP9
miRNAs that regulate target gene
hsa-mir-101-3p ; hsa-mir-196a-5p ; hsa-mir-591
Nearest miRNA
hsa-mir-3691/Upstream/3259318; hsa-mir-10398/Downstream/2442444;
Nearest TSS
ENST00000381078/Upstream/66357; ENST00000607518/Downstream/12452;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/83441, chr6-CpG: 217/Downstream/11635
Nearest cancer related gene
RANBP9(TSG, No orient, 0)
Upstream sequence
TTGGGTGCTTTTGTATGGATTTTTCTCTTTCAACATTTACGAAATAGGTATTATTTAACCTCACTTTTTGAAATGAAGAAATCTGTAATCTGTCATGGGC
Downstream sequence
CTACAGAAAAAAAAATAAAATGTTTACACATTATATACCCAGCCCCAAATTGGTAGAAACATATATTAGATCCATGCATGAATTAAAATCCCATACATTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate