Basic Information
VIS ID
TVIS30007508
Fusion event
HIV-TGFB1 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
chr19
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
41845977/41340072 (Hg38)
End
41845977/41340072 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
TGFB1
miRNAs that regulate target gene
hsa-mir-24-3p ; hsa-mir-29b-3p ; hsa-mir-144-3p ; hsa-mir-633 ; hsa-mir-663a ; hsa-mir-21-5p ; hsa-mir-744-5p ; hsa-mir-211-5p ; hsa-mir-17-5p ; hsa-mir-19b-3p ; hsa-mir-93-5p ; hsa-mir-324-3p ; hsa-mir-122-5p ; hsa-mir-130a-3p ; hsa-mir-422a ; hsa-mir-590-5p ; hsa-mir-675-5p ; hsa-mir-146a-5p ; hsa-mir-574-3p ; hsa-mir-15b-5p ; hsa-mir-29b-1-5p ; hsa-mir-106a-5p ; hsa-mir-185-5p
Nearest miRNA
hsa-mir-10395/Upstream/970165; hsa-let-7e/Downstream/529555;
Nearest TSS
ENST00000633603/Upstream/20339; ENST00000537354/Downstream/1958;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/8747, chr19-CpG: 33/Downstream/11270
Nearest cancer related gene
TGFB1(OG, No orient, 0)
Upstream sequence
GGGAGGAATAAGGTCAGATGATCACTCTAAATTTACAACATTCTAACTCTCCATTTCAACTTTCTAGGAATCCAACATTTCAGCTTTCTTAGATTGCAGT
Downstream sequence
ATTAGCATTCCAGCATCTTATGATTCTAACATTCTGACAGCATCTTCAACTCTCTAGGATTCCCCCTTTCCAACCTTTGAGGATCTTGGCATTCCTGAAT
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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