Basic Information
VIS ID
TVIS30005512
Fusion event
HIV-GALNT2 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
q42.13
Reference genome
GRCh37/hg19
Start
230363500/230227754 (Hg38)
End
230363500/230227754 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1H
Target gene
GALNT2
miRNAs that regulate target gene
hsa-mir-7-5p ; hsa-mir-98-5p ; hsa-let-7b-5p ; hsa-mir-1226-3p ; hsa-mir-99b-3p ; hsa-mir-7855-5p ; hsa-mir-6515-5p ; hsa-mir-4443 ; hsa-mir-6514-3p ; hsa-mir-7977 ; hsa-mir-550a-5p ; hsa-mir-550a-3-5p ; hsa-mir-1271-3p ; hsa-mir-4710 ; hsa-mir-4792 ; hsa-mir-650 ; hsa-mir-3612 ; hsa-mir-6811-3p ; hsa-mir-214-5p ; hsa-mir-1909-5p ; hsa-mir-432-5p ; hsa-mir-5690 ; hsa-mir-519e-3p ; hsa-mir-515-3p ; hsa-mir-33b-3p ; hsa-mir-6813-3p ; hsa-mir-3200-3p ; hsa-mir-6884-5p ; hsa-mir-485-5p
Nearest miRNA
hsa-mir-101-1/Upstream/1765602; hsa-mir-1182/Downstream/792074;
Nearest TSS
ENST00000473358/Upstream/160495; ENST00000492568/Downstream/27604;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/159292, chr1-CpG: 24/Downstream/51842
Upstream sequence
aggagaatagctgtaggtcatattaatggatgcaggagggaaagcagtgaaattcagcacttgtgagggagtttccttcacctgatgaaaggcatctgta
Downstream sequence
aaacatctatggcaaacacaaagcttaatgataaaaatctgcttgtgttcaatttaaagataggatcaaggcaaggttgttttttaccacttttaaaaat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate