Basic Information
VIS ID
TVIS30003576
Fusion event
HIV-RAB6B 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
chr3
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
133548811/133829967 (Hg38)
End
133548811/133829967 (Hg38)
Orient
+
Location type
Intronic
Target gene
RAB6B
miRNAs that regulate target gene
hsa-mir-122-5p ; hsa-mir-6515-5p ; hsa-mir-6731-5p ; hsa-mir-8085 ; hsa-mir-6797-5p ; hsa-mir-1249-5p ; hsa-mir-3116 ; hsa-mir-1254 ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-4254 ; hsa-mir-6760-5p ; hsa-mir-1252-5p ; hsa-mir-3653-5p ; hsa-mir-3140-5p ; hsa-mir-3914 ; hsa-mir-6771-3p
Nearest miRNA
hsa-let-7g/Upstream/1844036; hsa-mir-1224/Downstream/537837;
Nearest TSS
ENST00000440867/Upstream/18843; ENST00000482019/Downstream/64752;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/23612, chr3-CpG: 111/Downstream/64755
Upstream sequence
tatgactttatctctgacttttctttgcttttcctacctttattttccCCATGTGTGTGTGTACACACATACACATACAACTTTATCTTGTGTGTATGTA
Downstream sequence
TATGTATCTTATACCATGGCAGCCTATAAATGAGTAAATAGATACTAAGCCAGTGCCTTCCTTCCCACTGCCCACTGCAGCCCACCTTTTGTTCTCTCTA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate