Basic Information
VIS ID
TVIS30004206
Fusion event
HIV-RALGPS1 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
chr9
Cytoband
q33.3
Reference genome
GRCh37/hg19
Start
129822522/127060243 (Hg38)
End
129822522/127060243 (Hg38)
Orient
-
Location type
Intronic
Target gene
RALGPS1
miRNAs that regulate target gene
hsa-mir-377-3p ; hsa-mir-342-3p ; hsa-mir-3120-3p ; hsa-mir-8485
Nearest miRNA
hsa-let-7a-1/Upstream/2366445; hsa-mir-12126/Downstream/630444;
Nearest TSS
ENST00000422679/Upstream/10187; ENST00000467325/Downstream/47801;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/144513, chr9-CpG: 161/Downstream/164042
Upstream sequence
CTGTAATTCAGCTACCCGTAGAAATCAGAGAGACACGTCAGGTATTGCTGCATCAAAAAGTCCCTCTCCAGCCTAGGAGAGCCCCAAGGGAGCATGAGTG
Downstream sequence
GAAAAACTCATCTGTGAGAAATTGTCACCCTAGCCTGAACCTCATGCAGCGAAGGGATCTGAATACATGTTACATATGACCTGCATTTGTGTGGGGACCT
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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