Basic Information
VIS ID
TVIS30006958
Fusion event
HIV-RPA1 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
p13.3
Reference genome
GRCh37/hg19
Start
1796222/1892928 (Hg38)
End
1796222/1892928 (Hg38)
Orient
+
Location type
Intronic
Target gene
RPA1
miRNAs that regulate target gene
hsa-mir-1301-3p ; hsa-mir-615-3p ; hsa-mir-339-5p ; hsa-mir-31-5p ; hsa-let-7e-5p ; hsa-mir-145-5p ; hsa-mir-30a-5p ; hsa-mir-133a-5p ; hsa-mir-138-5p ; hsa-mir-139-3p ; hsa-mir-29b-1-5p ; hsa-mir-29b-2-5p ; hsa-mir-5091 ; hsa-mir-5092 ; hsa-mir-6131 ; hsa-mir-6863
Nearest miRNA
hsa-mir-22/Upstream/178941; hsa-mir-10226/Downstream/156980;
Nearest TSS
ENST00000595228/Upstream/1278; ENST00000574520/Downstream/102686;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/62655, chr17-CpG: 15/Downstream/3319
Nearest cancer related gene
RPA1(TSG, No orient, 0)
Upstream sequence
TATTTAATGTACAGAATAGATTGCTAATAATGCTGAATTTAGGAAAGGTAGTTGCTCAGGTAAAACATAAGGAAGACCAATAAAAGCTATGTTTTCTGGG
Downstream sequence
CCACATAAATGGGCACCTTTCTGTAGATGGCTTTTCCCCCGATTTCCTCCAAATTGGTTGGAATACTTGTAAAGGCCACAAAGATGAAAGGCTTTGCCAT
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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