Basic Information
VIS ID
TVIS30007308
Fusion event
HIV-SS18 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
chr18
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
23615466/26035502 (Hg38)
End
23615466/26035502 (Hg38)
Orient
-
Location type
Intronic
Target gene
SS18
miRNAs that regulate target gene
hsa-mir-140-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-331-3p ; hsa-mir-222-3p ; hsa-mir-383-3p ; hsa-mir-142-3p ; hsa-mir-218-5p ; hsa-mir-197-3p ; hsa-mir-6841-3p ; hsa-mir-6074 ; hsa-mir-4803 ; hsa-mir-153-3p ; hsa-mir-448 ; hsa-mir-6873-3p ; hsa-mir-539-3p ; hsa-mir-485-3p ; hsa-mir-3941 ; hsa-mir-494-3p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-4639-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-6079 ; hsa-mir-7977 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-564 ; hsa-mir-3202 ; hsa-mir-4493 ; hsa-mir-4533 ; hsa-mir-3622a-5p
Nearest miRNA
hsa-mir-1-2/Upstream/1713756; hsa-mir-122/Downstream/555965;
Nearest TSS
ENST00000575820/Upstream/437; ENST00000415576/Downstream/112;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/685236, chr18-CpG: 122/Downstream/54505
Nearest cancer related gene
SS18(OG, No orient, 0)
Upstream sequence
TGACTATGCTAAATAAAATAAAAAAGACAAAATTAAAGACAGCTACAAGAGCACACACTAGCTACACGAGATCAGCAAGCTGTTTCCTAAAGGCACTATA
Downstream sequence
CTTATATGTAAAATTATACATATGTAAACACACACGAGAAAAAAAAGTTTGATGGATTTATGTTCAAATAGAAAATTTCCACTGAGGAAAAAATTATCTT
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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