Basic Information
VIS ID
TVIS30005482
Fusion event
HIV-KCNH1 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
q32.2
Reference genome
GRCh37/hg19
Start
211279870/211106528 (Hg38)
End
211279870/211106528 (Hg38)
Orient
+
Location type
Intronic
Target gene
KCNH1
miRNAs that regulate target gene
hsa-mir-296-3p ; hsa-mir-335-5p ; hsa-mir-34a-5p ; hsa-mir-7704 ; hsa-mir-615-5p ; hsa-mir-2467-3p ; hsa-mir-4257 ; hsa-mir-6890-5p ; hsa-mir-7843-5p ; hsa-mir-6879-5p ; hsa-mir-6735-5p ; hsa-mir-4632-5p ; hsa-mir-4436b-3p ; hsa-mir-6753-5p ; hsa-mir-1911-3p ; hsa-mir-525-5p ; hsa-mir-520a-5p ; hsa-mir-505-3p ; hsa-mir-4290 ; hsa-mir-1233-3p ; hsa-mir-7113-3p ; hsa-mir-4673 ; hsa-mir-339-5p ; hsa-mir-4645-5p ; hsa-mir-6715b-5p ; hsa-mir-4269 ; hsa-mir-4687-5p ; hsa-mir-508-5p
Nearest miRNA
hsa-mir-101-1/Upstream/1483018; hsa-mir-1182/Downstream/971085;
Nearest TSS
ENST00000473358/Upstream/3013; ENST00000472734/Downstream/27417;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/422608, chr1-CpG: 92/Downstream/26797
Upstream sequence
GGTAACAGCATGAATTAGAAGGCAACAAAATATTGGTTCTCTCATCTTTTTCTGAAGTAAAAAACTTTGGCTGAggccaggcatggtggctcacgcctat
Downstream sequence
aatccagcactttgggaggccaaggcgggcagaccacctaaggtcaggagttcgagaccagcctggccaacatggtgaaacccccatctctactaaaaat
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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