Basic Information
VIS ID
TVIS30004946
Fusion event
HIV-CARD11 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
chr7
Cytoband
p22.2
Reference genome
GRCh37/hg19
Start
2986489/2946855 (Hg38)
End
2986489/2946855 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA7B
Target gene
CARD11
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-330-5p ; hsa-mir-146b-5p ; hsa-mir-218-5p ; hsa-mir-539-5p
Nearest miRNA
hsa-mir-339/Upstream/419710; hsa-mir-10399/Downstream/1841710;
Nearest TSS
ENST00000635602/Upstream/2820; ENST00000478527/Downstream/96990;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/17893, chr7-CpG: 35/Downstream/96652
Nearest cancer related gene
CARD11(OG, No orient, 0)
Upstream sequence
GATGAGCCACTTACCACCAGCCACGCTGGGGGAcagtgattatcaaaccttctaaactgatccatagaaagaaaaacatttaacattgtggtctagtgac
Downstream sequence
catagacaaagataACTCTACAAGTACATGTGTATACACATGTACATAATGTAAAATTAAAACAAGCTTCACAAACCATATTTATTACCTTTACTGAATA
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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