Basic Information
VIS ID
TVIS30001548
Fusion event
HIV-RIMS3 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
p34.2
Reference genome
GRCh37/hg19
Start
41105438/40639766 (Hg38)
End
41105438/40639766 (Hg38)
Orient
+
Location type
Intronic
Target gene
RIMS3
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-186-5p ; hsa-mir-103a-3p ; hsa-mir-16-5p ; hsa-mir-3185 ; hsa-mir-4753-3p ; hsa-mir-130b-5p ; hsa-mir-770-5p ; hsa-mir-4712-5p ; hsa-mir-455-3p ; hsa-mir-936 ; hsa-mir-4310 ; hsa-mir-7157-5p ; hsa-mir-5197-3p ; hsa-mir-216b-5p ; hsa-mir-3133 ; hsa-mir-6838-5p ; hsa-mir-497-5p ; hsa-mir-424-5p ; hsa-mir-195-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p ; hsa-mir-107 ; hsa-mir-3941 ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-8485 ; hsa-mir-329-3p ; hsa-mir-6868-3p ; hsa-mir-2355-5p ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-1247-5p ; hsa-mir-4286
Nearest miRNA
hsa-mir-12136/Upstream/2550437; hsa-mir-101-1/Downstream/114589;
Nearest TSS
ENST00000473358/Upstream/98452; ENST00000534399/Downstream/25679;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/107999, chr1-CpG: 22/Downstream/14416
Upstream sequence
cacccggctagtaaatgacaggggatggatctgaacttgaggtcgttctccaggaacatgctttctccccaggctctggatgcctcatcaataaaataag
Downstream sequence
tacagcgtactagatgatctcaagggactctcctcactcacattcagcaattagctgattcACAGAGACCTTCAGTTAGAAGGGCATCTGGGCAGTTCCC
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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