Basic Information
VIS ID
TVIS30003649
Fusion event
HIV-CHIC2 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
chr4
Cytoband
q12
Reference genome
GRCh37/hg19
Start
54871411/54005244 (Hg38)
End
54871411/54005244 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA4B
Target gene
CHIC2
miRNAs that regulate target gene
hsa-mir-197-3p ; hsa-mir-124-3p ; hsa-mir-29c-3p
Nearest miRNA
hsa-mir-12113/Upstream/1292497; hsa-mir-1243/Downstream/6917375;
Nearest TSS
ENST00000502981/Upstream/7532; ENST00000595906/Downstream/54353;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/627014, chr4-CpG: 82/Downstream/58830
Nearby gene
CHIC2(No orient, 4547)
Upstream sequence
TAAACAACAACAGAGCAATATACAGCTTATTTGCCAAAATTAAGGATACCGGGTATGGTCACTTCATCAAAATACTTTCTAAGATAAAGAGCTAGGAAAG
Downstream sequence
CAATATACTGGTTTTCATAAAGAGAAAAAAGTAATCAACTCAATATCAGAGCACCATGTCTATGAAATAGAGGGGATATAAAAAAAGGCATGATTTTGTT
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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