Basic Information
VIS ID
TVIS30005610
Fusion event
HIV-CTNNA3 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
q21.3
Reference genome
GRCh37/hg19
Start
69304901/67545143 (Hg38)
End
69304901/67545143 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA10C
Target gene
CTNNA3
miRNAs that regulate target gene
hsa-mir-182-5p ; hsa-mir-5704 ; hsa-mir-4470 ; hsa-mir-3065-5p ; hsa-mir-3613-3p ; hsa-mir-1295b-3p ; hsa-mir-15a-3p ; hsa-mir-4717-5p ; hsa-mir-6826-3p ; hsa-mir-6891-3p ; hsa-mir-6072 ; hsa-mir-6795-3p ; hsa-mir-6887-3p ; hsa-mir-548ay-3p ; hsa-mir-548at-3p ; hsa-mir-548as-3p ; hsa-mir-548t-3p ; hsa-mir-548ap-3p ; hsa-mir-548aa ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p
Nearest miRNA
hsa-mir-1265/Upstream/141733; hsa-mir-107/Downstream/4245604;
Nearest TSS
ENST00000439456/Upstream/325270; ENST00000610279/Downstream/120509;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/2490840, chr10-CpG: 39/Downstream/218942
Nearest cancer related gene
CTNNA3(TSG, No orient, 0)
Upstream sequence
TAAAAAAAATTTTTTCATAACTAATCTGTGtttttttattattatactttaagttctagggtacacgtgcacaacgtgcaggtttgttacatatgtatat
Downstream sequence
atgtgccatgttggtaaaattatataaaatgttttataaaacataaaatttGATGGGGCTAGTTTCTATAAAAGTAATAGAAACATCTCCCAACATCATA
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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