Basic Information
VIS ID
TVIS30005814
Fusion event
HIV-GANAB 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
chr11
Cytoband
q12.3
Reference genome
GRCh37/hg19
Start
62404709/62637237 (Hg38)
End
62404709/62637237 (Hg38)
Orient
-
Location type
Intronic
Target gene
GANAB
miRNAs that regulate target gene
hsa-mir-1296-5p ; hsa-mir-93-3p ; hsa-mir-615-3p ; hsa-mir-484 ; hsa-mir-324-5p ; hsa-mir-125b-5p ; hsa-mir-23b-3p ; hsa-mir-222-3p ; hsa-mir-181b-5p ; hsa-mir-181a-5p ; hsa-mir-34a-5p ; hsa-mir-107 ; hsa-mir-92a-3p ; hsa-mir-17-5p ; hsa-mir-3619-5p ; hsa-mir-155-5p ; hsa-mir-629-3p ; hsa-mir-515-5p ; hsa-mir-519e-5p ; hsa-mir-29a-5p ; hsa-mir-497-3p ; hsa-mir-136-5p ; hsa-mir-16-5p ; hsa-mir-195-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p ; hsa-mir-1273a ; hsa-mir-1273c ; hsa-mir-1273g-5p ; hsa-mir-1291 ; hsa-mir-146b-3p ; hsa-mir-203a-5p ; hsa-mir-29b-2-5p ; hsa-mir-3074-5p ; hsa-mir-6775-3p ; hsa-mir-7152-5p ; hsa-mir-7160-3p
Nearest miRNA
hsa-mir-129-2/Upstream/70166; hsa-let-7a-2/Downstream/152578;
Nearest TSS
ENST00000527297/Upstream/3307; ENST00000594728/Downstream/2230;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/14918, chr11-CpG: 57/Downstream/8923
Nearest cancer related gene
GANAB(TSG, No orient, 0)
Upstream sequence
acaactaaatgtaataacatatcctggatgaaatcctggaacagaaaaagaacatacacaaaaactaaagaaacctcaagtatgaactttagtaactaat
Downstream sequence
gtatcactatcaattcactaggtatcacaaatgaaccatagtcatattaataatagggaaggctggccgggtgtggtggctcaagcctgtaatcctagca
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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