Basic Information
VIS ID
TVIS30007962
Fusion event
HIV-chr20 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
chr20
Cytoband
p11.23
Reference genome
GRCh37/hg19
Start
20805236/20824593 (Hg38)
End
20805236/20824593 (Hg38)
Orient
-
Location type
Intergenic
Fragile sites / regions
FRA20A
Nearest miRNA
hsa-mir-103a-2/Upstream/2353902; hsa-mir-1-1/Downstream/5383593;
Nearest TSS
ENST00000382410/Upstream/112105; ENST00000432942/Downstream/145855;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/111450, chr20-CpG: 38/Downstream/195531
Nearby gene
RALGAPA2(No orient, 111970)
Upstream sequence
agaagattctacaggcctccagagagaaaaaagaggacttagaaaaaaataaaattagaaAACAACATTTTATTTTTAAAAAAATTCCTTCCTTTTGTAA
Downstream sequence
ATGTTTGCTAAAATCATCCCTTAATCAGTTAAGGGATCAATTCAAAGACTACTGGTTGAGGTAGTACTAATTCTACTGTGTCAAAAACAACTCGCTTTAC
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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