Basic Information
VIS ID
TVIS30003199
Fusion event
HIV-UBR3 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
q31.1
Reference genome
GRCh37/hg19
Start
170742188/169885678 (Hg38)
End
170742188/169885678 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2G
Target gene
UBR3
miRNAs that regulate target gene
hsa-mir-615-3p ; hsa-mir-21-5p ; hsa-mir-23b-3p ; hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-26a-5p ; hsa-mir-26b-5p ; hsa-mir-103a-3p ; hsa-mir-107 ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-424-5p ; hsa-mir-497-5p ; hsa-mir-374b-3p ; hsa-mir-297 ; hsa-mir-1297 ; hsa-mir-3924 ; hsa-mir-4465 ; hsa-mir-4524a-5p ; hsa-mir-4524b-5p ; hsa-mir-4666b ; hsa-mir-6838-5p ; hsa-mir-7849-3p ; hsa-mir-136-5p ; hsa-mir-1305 ; hsa-mir-630 ; hsa-mir-567 ; hsa-mir-5697 ; hsa-mir-4272 ; hsa-mir-3168 ; hsa-mir-646 ; hsa-mir-148a-5p ; hsa-mir-503-5p
Nearest miRNA
hsa-mir-128-1/Upstream/1302660; hsa-mir-10b/Downstream/5281955;
Nearest TSS
ENST00000437798/Upstream/58170; ENST00000477461/Downstream/43183;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/57559, chr2-CpG: 44/Downstream/826134
Upstream sequence
aaacagacagaaaaaaaaaacaaaaagaaAACATTTACATTTAGCCCTACCATCCAAAGATTATCACTGTTTATAAATTTTGCTTGTTTACTTTTCTTTT
Downstream sequence
TTTCCTGTATACTCTTACATAATTGAGAAATAATCACTTTGCAAAATAAGTTACTGTGTAGATATGCTTTGAATATTCTTGTCTTTATTCAAGACACAAT
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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