Basic Information
VIS ID
TVIS30009090
Fusion event
HIV-KCNQ5 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
q13
Reference genome
GRCh37/hg19
Start
73782611/73072888 (Hg38)
End
73782611/73072888 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6D
Target gene
KCNQ5
miRNAs that regulate target gene
hsa-mir-190a-5p ; hsa-mir-194-3p ; hsa-mir-574-5p ; hsa-mir-6515-5p ; hsa-mir-6867-5p ; hsa-mir-7847-3p ; hsa-mir-3650 ; hsa-mir-4455 ; hsa-mir-6747-5p ; hsa-mir-6797-5p ; hsa-mir-1249-5p ; hsa-mir-6738-5p ; hsa-mir-5194 ; hsa-mir-1914-3p ; hsa-mir-6782-5p ; hsa-mir-5693 ; hsa-mir-675-3p ; hsa-mir-223-5p ; hsa-mir-543 ; hsa-mir-5096 ; hsa-mir-101-3p ; hsa-mir-139-5p ; hsa-mir-4999-3p ; hsa-mir-144-3p ; hsa-mir-6507-5p ; hsa-mir-4282
Nearest miRNA
hsa-mir-10398/Upstream/105135; hsa-mir-10524/Downstream/2355519;
Nearest TSS
ENST00000381078/Upstream/30952; ENST00000427928/Downstream/47669;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/449507, chr6-CpG: 22/Downstream/84973
Upstream sequence
TTTCTACTGGGctgcttataatcaatagctctttcttcactacttcccaacttgttctaatttgtttcctttgagagaggtagattttaagagttctgga
Downstream sequence
ttacatgcttttttttttattcatgtgacttagagctcctccttgtttattagcagttctatttctttctctagccccattttctcttgaAGCAGCCATA
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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