Basic Information
VIS ID
TVIS30006881
Fusion event
HIV-CNGB1 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
q21
Reference genome
GRCh37/hg19
Start
57966361/57932457 (Hg38)
End
57966361/57932457 (Hg38)
Orient
-
Location type
Intronic
Target gene
CNGB1
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-125b-5p ; hsa-mir-6848-3p ; hsa-mir-6843-3p ; hsa-mir-203b-3p ; hsa-mir-7158-3p ; hsa-mir-6749-3p ; hsa-mir-4680-5p ; hsa-mir-3663-5p ; hsa-mir-2116-3p ; hsa-mir-372-5p ; hsa-mir-371a-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p
Nearest miRNA
hsa-mir-1225/Upstream/160105; hsa-mir-11401/Downstream/9269864;
Nearest TSS
ENST00000527434/Upstream/20556; ENST00000569996/Downstream/7092;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/28496, chr16-CpG: 92/Downstream/52039
Upstream sequence
gggaggaGCCAGAAGGCACAAGTACTCACATTCTTAAAGAttcttttttttttttttttttttgagtcggagtctcgctctgtctcccaggctggagtgc
Downstream sequence
agtggtgcaatctcagttcaccccaagctccttctcctgggttcatgccattctcctgcctcagcctcccgagtagctgggactacaggctcccgccacc
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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