Basic Information
VIS ID
TVIS30000726
Fusion event
HIV-ABCA2 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
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr9
Cytoband
q34.3
Reference genome
GRCh37/hg19
Start
139920312/137025860 (Hg38)
End
139920312/137025860 (Hg38)
Orient
+
Location type
Intronic
Target gene
ABCA2
miRNAs that regulate target gene
hsa-mir-19b-3p ; hsa-mir-485-5p ; hsa-mir-4644 ; hsa-mir-218-1-3p ; hsa-mir-6721-5p ; hsa-mir-4722-5p ; hsa-mir-6089 ; hsa-mir-7112-5p ; hsa-mir-4768-3p ; hsa-mir-320e ; hsa-mir-4429 ; hsa-mir-320d ; hsa-mir-320c ; hsa-mir-320b ; hsa-mir-320a
Nearest miRNA
hsa-let-7a-1/Upstream/139057; hsa-mir-3621/Downstream/143326;
Nearest TSS
ENST00000422679/Upstream/5055; ENST00000457302/Downstream/1604;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/2820, chr9-CpG: 182/Downstream/1885
Upstream sequence
GTAACTGCAGCAACAGGCCCGGCTGCCTCCCCCATTGCTATAGCAACGGCCTCGCACGAGCTACTGGGAGGAGGAGGAGAGTCCTGGCTGGCAGGCGGCG
Downstream sequence
GGCGCCACAGCAGCATCTGGTTACAGGCGGCAGCACAGGTCTAGCACGCCCTGGGTGCCCCACACAGGTGCCTCCAGGTGGCCCAACCTCCGTCCCTCGA
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
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