Basic Information
VIS ID
TVIS30013439
Fusion event
HIV-UBR2 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
chr6
Cytoband
p21.1
Reference genome
GRCh37/hg19
Start
42616782/42649044 (Hg38)
End
42616782/42649044 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
UBR2
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-5580-3p
Nearest miRNA
hsa-mir-10398/Upstream/915434; hsa-mir-10524/Downstream/785498;
Nearest TSS
ENST00000381078/Upstream/84982; ENST00000614467/Downstream/73530;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/84490, chr6-CpG: 71/Downstream/78083
Upstream sequence
GCGGGTTGTTGGTTTTATTGGGTTTTTTTAGTTTTTACATAATATACTTtgtcagtacatataggcatacttcatcctttttcacttcagcctgggtaac
Downstream sequence
aaagcgagactcaagtgcagtggcacggtcttggctcactgcaacctccgcctcctaggtccaagcaattctcctgcctcagcctcccaagtagctggga
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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