Basic Information
VIS ID
TVIS30011481
Fusion event
HIV-HSPA12A 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
chr10
Cytoband
q25.3
Reference genome
GRCh37/hg19
Start
118581612/116822101 (Hg38)
End
118581612/116822101 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10D ; FRA10A ; FRA10B
Target gene
HSPA12A
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-339-5p
Nearest miRNA
hsa-mir-107/Upstream/2647922; hsa-mir-202/Downstream/5387;
Nearest TSS
ENST00000439456/Upstream/79527; ENST00000512864/Downstream/27411;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/33758, chr10-CpG: 47/Downstream/26987
Nearby gene
ENO4(No orient, 27411)
Upstream sequence
AGACAGCTTTGCGTGCTATGCCTATCTTTTGGTGTTCGCTAAGGCATTTACATCACTTTGTATAGAGCAGTAGTATTTCACTTTGTGTAAAGTAAGTAGT
Downstream sequence
ACACTTGGGTTTATCTGAGGACATGGGATGTGGATAACTGAGTTTCTTCTCACTTCCACACTTGCTCAAGTCTTTGTCCATACGGGAACTGTCTCTCTCC
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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