Basic Information
VIS ID
TVIS30007719
Fusion event
HIV-KDM3A 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
p11.2
Reference genome
GRCh37/hg19
Start
86687385/86460262 (Hg38)
End
86687385/86460262 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2S ; FRA2L
Target gene
KDM3A
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-92b-3p ; hsa-mir-627-5p ; hsa-mir-30e-5p ; hsa-mir-30c-5p ; hsa-mir-30d-5p ; hsa-mir-30b-5p ; hsa-mir-30a-5p
Nearest miRNA
hsa-mir-1285-2/Upstream/267154; hsa-mir-10b/Downstream/734524;
Nearest TSS
ENST00000437798/Upstream/3829; ENST00000485171/Downstream/6370;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/17938, chr2-CpG: 60/Downstream/102589
Nearest cancer related gene
KDM3A(TSG, No orient, 0)
Upstream sequence
GTAAGGAAATACTTTCCTTCTGTCTCTTCTCCCCCTGTATTTATCACAGAGACCTGATTTTTTTTGTTAGTTTTTTAAAACTAAAAACCATACTCTTGTA
Downstream sequence
GCCTCCTTGATTCCCTTGCAATGTATTATAACTATTATTCCATATCGGTAAATGTCTTTCGTTCTGGGTGATTCTTGTAGTCAGACAAGTTTTGGATACA
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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