Basic Information
VIS ID
TVIS30003148
Fusion event
HIV-LOC112268416 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
chr2
Cytoband
p16.1
Reference genome
GRCh37/hg19
Start
56084728/55857593 (Hg38)
End
56084728/55857593 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
LOC112268416
Nearest miRNA
hsa-mir-1301/Upstream/2008388; hsa-mir-10b/Downstream/125374;
Nearest TSS
ENST00000437798/Upstream/163683; ENST00000606639/Downstream/60187;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/163585, chr2-CpG: 50/Downstream/65612
Nearby gene
EFEMP1(No orient, 8369)
Upstream sequence
actttaAAAAAAATGGAACCCAAAACATtgtttattttccccaccatattgtaagttttttgaggtcagagaccatgccatttttatctttgcttcctta
Downstream sequence
gtacttaacatagtgcctggcacagggcagatgcccagtaaaatgtttattgaagtgaatgaTACTAGAATTATAAGGCAAGATCCAGGAGCTGGGGTAT
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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