Basic Information
VIS ID
TVIS30002531
Fusion event
HIV-GFOD2 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
q22.1
Reference genome
GRCh37/hg19
Start
67739032/67705129 (Hg38)
End
67739032/67705129 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA16B
Target gene
GFOD2
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-421
Nearest miRNA
hsa-mir-1225/Upstream/502734; hsa-mir-11401/Downstream/528297;
Nearest TSS
ENST00000527434/Upstream/19517; ENST00000562633/Downstream/14171;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/37678, chr16-CpG: 60/Downstream/13817
Upstream sequence
GGAAACAAACCCACTGGGCACTGGGTATGCTaccttccctgcacatggtccttccagctgggtctctgatgaaagagaaatataggagttgaatagttgt
Downstream sequence
tttccctgccaTGGTATCCATTATTCATCCTAAATACCTCTCAGTATATCTTCAAGAATACTTTTGATCACCTGCCAGttttttcttttctttttttaga
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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