Basic Information
VIS ID
TVIS30007227
Fusion event
HIV-chr17 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
q25.1
Reference genome
GRCh37/hg19
Start
74547793/76551711 (Hg38)
End
74547793/76551711 (Hg38)
Orient
-
Location type
Intronic
Target gene
CYGB ; PRCD
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-1277-5p ; hsa-mir-6083 ; hsa-mir-297 ; hsa-mir-4777-5p ; hsa-mir-526a ; hsa-mir-523-5p ; hsa-mir-522-5p ; hsa-mir-520c-5p ; hsa-mir-519c-5p ; hsa-mir-519b-5p ; hsa-mir-519a-5p ; hsa-mir-518f-5p ; hsa-mir-518e-5p ; hsa-mir-518d-5p ; hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-567 ; hsa-mir-190b ; hsa-mir-190a-5p ; hsa-mir-511-3p ; hsa-mir-5011-5p ; hsa-mir-7705 ; hsa-mir-1255b-5p ; hsa-mir-1255a ; hsa-mir-3605-5p ; hsa-mir-3679-5p ; hsa-mir-1185-5p ; hsa-mir-4699-5p ; hsa-mir-1245b-3p ; hsa-mir-2392 ; hsa-mir-5683
Nearest miRNA
hsa-mir-10226/Upstream/453635; hsa-mir-1250/Downstream/184739;
Nearest TSS
ENST00000595228/Upstream/536; ENST00000588104/Downstream/1220;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/13227, chr17-CpG: 76/Downstream/5427
Nearby gene
SNHG16(No orient, 6053)
Nearest cancer related gene
CYGB(TSG, No orient, 0)
Upstream sequence
CATCTGCATGATCCCAGCTTTCTGAACAGGATTTGTGACACTGTTTCACGGTCCTAAGAACTCTCAGGAAAAAATCCTCTATATTTTCATGACAGGTTTT
Downstream sequence
CTAGGTGGGTGAATTAAAGTCTCTGGAGTTAAGCAAAAACGGTCCACTGTCATAGCGTAATTTTTTTAGGAaacatggcatggtggctgagaccatgggt
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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