Basic Information
VIS ID
TVIS30005448
Fusion event
HIV-COLGALT2 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
q25.3
Reference genome
GRCh37/hg19
Start
183971136/184002002 (Hg38)
End
183971136/184002002 (Hg38)
Orient
+
Location type
Intronic
Target gene
COLGALT2
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-101-1/Upstream/3563612; hsa-mir-1182/Downstream/8714326;
Nearest TSS
ENST00000473358/Upstream/37502; ENST00000457455/Downstream/35727;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/365804, chr1-CpG: 140/Downstream/34223
Upstream sequence
CCCACAGGTCTAAAAGTCTGGGCCTAATGCTTCTCTGGCAGAAATTTTCATTGCTTTATAAGGTTCTTCCAAGTACAGCCTTTGAATGACAAAGTTTAAA
Downstream sequence
CCCTCTAGCTATGCCACCCCTTGCTCCTATTTTATCTTCCTCACACCATTTTGAAGATTATGATTTTTCCATTTTGCTGCTACTGAAAGCAAACACTAGA
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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