Basic Information
VIS ID
TVIS30004532
Fusion event
HIV-RAB11FIP3 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
chr16
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
485412/435412 (Hg38)
End
485412/435412 (Hg38)
Orient
-
Location type
Intronic
Target gene
RAB11FIP3
miRNAs that regulate target gene
hsa-mir-484 ; hsa-mir-1277-5p ; hsa-mir-6516-3p ; hsa-mir-190a-3p ; hsa-mir-3607-5p ; hsa-mir-205-3p ; hsa-mir-5011-5p ; hsa-mir-5580-3p ; hsa-mir-223-5p ; hsa-mir-511-3p ; hsa-mir-4789-5p ; hsa-mir-4672 ; hsa-mir-6768-5p
Nearest miRNA
hsa-mir-6859-4/Upstream/418293; hsa-mir-11401/Downstream/99904;
Nearest TSS
ENST00000527434/Upstream/9033; ENST00000483002/Downstream/39438;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/8597, chr16-CpG: 16/Downstream/47055
Upstream sequence
CAGGCTTATGGATTGCTTCTCTTCCAAGCACTTATTTTGTTTAAATTCTGGAAACATTCAATGTAAACATTAGTTATATCAGACAAAAGGATTAGGCATC
Downstream sequence
CACTTAAGTCTATTATGTAGCTCATAAAAGTGGTAATTATAAAGGCTCCAAATTTACTTAGATTAGCACTTCTAAGTTATTATGATAGAGTGATGTACTA
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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