Basic Information
VIS ID
TVIS30005442
Fusion event
HIV-RALGPS2 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
chr1
Cytoband
q25.2
Reference genome
GRCh37/hg19
Start
178818559/178849424 (Hg38)
End
178818559/178849424 (Hg38)
Orient
+
Location type
Intronic
Target gene
RALGPS2
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-21-5p ; hsa-mir-196a-5p ; hsa-mir-5004-3p ; hsa-mir-6809-3p ; hsa-mir-432-3p ; hsa-mir-4753-3p ; hsa-mir-1193 ; hsa-mir-627-3p ; hsa-mir-942-5p ; hsa-mir-130b-5p ; hsa-mir-3121-5p ; hsa-mir-6796-3p
Nearest miRNA
hsa-mir-101-1/Upstream/171590; hsa-mir-1182/Downstream/954500;
Nearest TSS
ENST00000473358/Upstream/123139; ENST00000415888/Downstream/19854;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/123411, chr1-CpG: 141/Downstream/176299
Upstream sequence
TCTAGGAACTTCAGAGTAAAATAAATCAGCTCTCTGAAGGAGAGCAGAATGGGCCCATTGGCTAAGGCAGTTTAGCATTCAGCCTAGTTTTCCAAGGTTG
Downstream sequence
TATGTTGACTTTCAAATTCTAGTTTTAATGATATTCTTCTGTGAAAATTCTGTAAGGCTTGTCTTTGATAAAGTTTTGGGTGTTTAAATGAAATGATATA
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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