Basic Information
VIS ID
TVIS30012665
Fusion event
HIV-CPSF3 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
chr2
Cytoband
p25.1
Reference genome
GRCh37/hg19
Start
9596398/9456269 (Hg38)
End
9596398/9456269 (Hg38)
Orient
-
Location type
Intronic
Target gene
CPSF3
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-30a-5p ; hsa-mir-708-5p
Nearest miRNA
hsa-mir-7158/Upstream/2805830; hsa-mir-10b/Downstream/736345;
Nearest TSS
ENST00000437798/Upstream/14539; ENST00000489403/Downstream/708;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/32116, chr2-CpG: 119/Downstream/17796
Upstream sequence
CAGGTTTTATAAGAGTTCATGACCACTGGCCAAAGGCCAGTGAGAAAATAAACCTAGTCTGCTTTCATTATTAGACCATTTGAGTTCGAGATTTTGTATA
Downstream sequence
TTAACATCATGAGGGGCCGTGACTAAATTAAAAGGTGTAGACTTTCTGATAGAGCAAGAATACTTCATATTACAAAATACATTTTCCATCAGTAACGCTC
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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