Basic Information
VIS ID
TVIS30001576
Fusion event
HIV-GBP2 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
chr1
Cytoband
p22.2
Reference genome
GRCh37/hg19
Start
89580401/89114718 (Hg38)
End
89580401/89114718 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1D
Target gene
GBP2
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-26b-5p ; hsa-mir-433-3p ; hsa-mir-6806-5p ; hsa-mir-4709-5p ; hsa-mir-186-5p
Nearest miRNA
hsa-mir-101-1/Upstream/2757031; hsa-mir-11399/Downstream/4732114;
Nearest TSS
ENST00000473358/Upstream/1668; ENST00000641099/Downstream/5502;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/121797, chr1-CpG: 114/Downstream/409533
Upstream sequence
GTCAATGAGAAAACTTAGCCtttttatttttattaattttaGTGGTGCAGACCACTAGTCACTAGTCTGGTGTCTGGCTTAGGTAAATATGTCTTCTTAG
Downstream sequence
ATATTCTCTCATCAGAACTACAGAtaggataatcaactcatcgagtttgccagggctttgctgggtgtagcactgaaagtctcacatgccaggaaaacct
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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