Home
Browse
Prime browse
Clustered VIS browse
Search
Curation
Gene
Target gene
All
Oncogene
Tumor suppressor gene
Nearby gene
All
Oncogene
Tumor suppressor gene
MicroRNA
RNA-interaction
ncRNA
Host2Host
Host2Virus
Virus2Host
• miRNA
Host2Host
Host2Virus
Virus2Host
• lncRNA
Host2Host
Host2Virus
Virus2Host
Download
Statistics
Help
VISDB
Viral Integration Site DataBase
Homepage
Prime VIS Browse Options
TVIS30005108
Basic Information
VIS ID
TVIS30005108
Fusion event
HIV-UBR4 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
p36.13
Reference genome
GRCh37/hg19
Start
19515529/19189035 (Hg38)
End
19515529/19189035 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
UBR4
miRNAs that regulate target gene
hsa-mir-155-5p
;
hsa-mir-128-3p
;
hsa-mir-34a-5p
;
hsa-mir-877-3p
;
hsa-mir-877-5p
;
hsa-mir-296-3p
;
hsa-mir-378a-5p
;
hsa-mir-185-5p
;
hsa-mir-26a-5p
;
hsa-mir-26b-5p
;
hsa-mir-1249-5p
;
hsa-mir-3173-3p
;
hsa-mir-3190-3p
;
hsa-mir-3202
;
hsa-mir-363-5p
;
hsa-mir-4419a
;
hsa-mir-4457
;
hsa-mir-4471
;
hsa-mir-4510
;
hsa-mir-4533
;
hsa-mir-4773
;
hsa-mir-4779
;
hsa-mir-5700
;
hsa-mir-605-3p
;
hsa-mir-6127
;
hsa-mir-6129
;
hsa-mir-6130
;
hsa-mir-6133
;
hsa-mir-6745
;
hsa-mir-6760-5p
;
hsa-mir-6797-5p
;
hsa-mir-6804-5p
;
hsa-mir-6878-5p
;
hsa-mir-6891-5p
;
hsa-mir-8059
Nearest miRNA
hsa-mir-12136/Upstream/291887; hsa-mir-101-1/Downstream/1444644;
Nearest TSS
ENST00000473358/Upstream/11290;
ENST00000437898/Downstream/21241;
Nearest CpG islands
None/Target,
chr1-CpG: 111/Upstream/231646
,
chr1-CpG: 83/Downstream/20622
Upstream sequence
tctagcctaggagacaaagtgactctacctctgtaaaaataataataaaaaaattaaaaagaaaatgacaaataccaaaaagaaaaccaaggcaaaggac
Downstream sequence
ataaggcagtttacaaaagaaatacaaatgaccaataaataggtgaaaggaaatacaatcacattagtaatcaaagaaatacaaatacatgaaatatcat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Sample Information
×
Sample name
Central Memory CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
Download
Curate