Basic Information
VIS ID
TVIS30012096
Fusion event
HIV-chr16 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
p12.1
Reference genome
GRCh37/hg19
Start
27399554/27388233 (Hg38)
End
27399554/27388233 (Hg38)
Orient
+
Location type
Intergenic
Fragile sites / regions
FRA16E
Nearest miRNA
hsa-mir-1225/Upstream/1362923; hsa-mir-11401/Downstream/1002749;
Nearest TSS
ENST00000527434/Upstream/32885; ENST00000561953/Downstream/13929;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/73859, chr16-CpG: 56/Downstream/161455
Nearby gene
IL21R(No orient, 13929)
Upstream sequence
TTATTTCAACCTAGTCAGTACTTTATACACACAGCATACCTGGTTATTTCTTGCTTCACCAGTTTGGGTACACAGATAAGCCTCTTCATCCTTTTGATAG
Downstream sequence
TCACTCAATCCCCTTGTATGGTTAGAAGTTCCAACTTCTAATAGAGACCAACCACAGTGGCTTAAACACTTAAGAGCTAATTCCTTTATGGAACGAGAAG
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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