Basic Information
VIS ID
TVIS30001698
Fusion event
HIV-RBBP5 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
chr1
Cytoband
q32.1
Reference genome
GRCh37/hg19
Start
205056504/205087376 (Hg38)
End
205056504/205087376 (Hg38)
Orient
+
Location type
UTR3
Target gene
RBBP5
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-128-3p ; hsa-mir-122-5p ; hsa-mir-1-3p ; hsa-mir-92b-3p ; hsa-mir-4284 ; hsa-mir-6511b-3p ; hsa-mir-6511a-3p ; hsa-mir-4439 ; hsa-mir-3136-5p ; hsa-mir-513a-5p ; hsa-mir-3118 ; hsa-mir-134-5p ; hsa-mir-6857-3p ; hsa-mir-6855-3p ; hsa-mir-4513 ; hsa-mir-570-3p ; hsa-mir-27b-3p ; hsa-mir-27a-3p
Nearest miRNA
hsa-mir-101-1/Upstream/3084140; hsa-mir-1182/Downstream/360926;
Nearest TSS
ENST00000473358/Upstream/2916; ENST00000367159/Downstream/34590;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/17351, chr1-CpG: 95/Downstream/123459
Upstream sequence
acctctgcctcccacgttcaagtgattctcctgactcagcctccagtgtagctgggattacaggcatgtactaccacgcccagctaatttttgtctttta
Downstream sequence
atagatacaggctttcaccacgttggccaggctggtcttgaactcctgacctcgggtgatcaacccgccttggcctcccaaagtgctgggattacaggcg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate