Basic Information
VIS ID
TVIS30007190
Fusion event
HIV-SMURF2 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
chr17
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
62555317/64559199 (Hg38)
End
62555317/64559199 (Hg38)
Orient
-
Location type
Intronic
Target gene
SMURF2
miRNAs that regulate target gene
hsa-mir-122-5p ; hsa-mir-16-5p ; hsa-mir-630 ; hsa-mir-511-5p ; hsa-mir-203a-3p ; hsa-mir-4670-3p ; hsa-mir-93-3p ; hsa-mir-382-5p ; hsa-mir-431-5p ; hsa-mir-526b-5p ; hsa-mir-4635 ; hsa-mir-665 ; hsa-mir-4495 ; hsa-mir-3667-5p ; hsa-mir-6807-5p ; hsa-mir-6872-3p ; hsa-mir-378a-5p ; hsa-mir-4454 ; hsa-mir-6821-3p ; hsa-mir-6790-3p ; hsa-mir-3653-5p ; hsa-mir-7107-5p ; hsa-mir-1234-3p ; hsa-mir-1224-3p ; hsa-mir-186-3p ; hsa-mir-3934-5p ; hsa-mir-764 ; hsa-mir-125a-3p
Nearest miRNA
hsa-mir-10226/Upstream/57886; hsa-mir-1250/Downstream/221560;
Nearest TSS
ENST00000595228/Upstream/22340; ENST00000577938/Downstream/3966;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/51751, chr17-CpG: 112/Downstream/102092
Upstream sequence
TGTGTCTTGTGTTTTTGGTGTGTGTATGTGTTTTTTAAAAAGAAAATCCAAATTTTTGTTTTGTTTTACCAAGTATTTAGAACACAAATAAGAGCAGAAC
Downstream sequence
TCAACTACTTTGAGATTCTACTATGGAATAAAGTTCAGAAAAAGCAGATCACTGTCACATTCCATTTATTCTGCTCAAACCCTGACAGTAGTAAGGTTAA
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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