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VISDB
Viral Integration Site DataBase
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TVIS30001685
Basic Information
VIS ID
TVIS30001685
Fusion event
HIV-RO60 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
q31.2
Reference genome
GRCh37/hg19
Start
193031465/193062335 (Hg38)
End
193031465/193062335 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1K
Target gene
RO60
miRNAs that regulate target gene
hsa-mir-155-5p
;
hsa-mir-128-3p
;
hsa-mir-1-3p
;
hsa-let-7b-5p
;
hsa-mir-205-3p
;
hsa-mir-216a-3p
;
hsa-mir-130a-3p
;
hsa-mir-301a-3p
;
hsa-mir-130b-3p
;
hsa-mir-601
;
hsa-mir-454-3p
;
hsa-mir-301b-3p
;
hsa-mir-4295
;
hsa-mir-3666
;
hsa-mir-3681-3p
;
hsa-mir-4671-3p
;
hsa-mir-6080
;
hsa-mir-8076
;
hsa-mir-4325
;
hsa-mir-3591-5p
;
hsa-mir-3163
;
hsa-mir-27a-3p
;
hsa-mir-27b-3p
;
hsa-mir-1255b-5p
;
hsa-mir-1255a
;
hsa-mir-556-5p
;
hsa-mir-483-5p
;
hsa-mir-4282
;
hsa-mir-142-3p
;
hsa-mir-655-3p
;
hsa-mir-374c-5p
;
hsa-mir-4280
;
hsa-mir-664b-3p
;
hsa-mir-579-3p
;
hsa-mir-5696
;
hsa-mir-6853-3p
;
hsa-mir-4680-3p
;
hsa-mir-153-5p
;
hsa-mir-1250-3p
;
hsa-mir-6501-3p
;
hsa-mir-5697
;
hsa-mir-6504-3p
;
hsa-mir-449c-5p
;
hsa-mir-34b-5p
;
hsa-mir-2682-5p
;
hsa-mir-4797-5p
;
hsa-mir-3910
;
hsa-mir-3714
;
hsa-mir-124-3p
;
hsa-mir-506-3p
;
hsa-mir-5700
;
hsa-mir-3942-3p
;
hsa-mir-759
;
hsa-mir-3152-5p
;
hsa-mir-6836-3p
;
hsa-mir-200a-3p
;
hsa-mir-141-3p
;
hsa-mir-202-3p
;
hsa-mir-4684-5p
;
hsa-mir-4768-5p
;
hsa-mir-548at-5p
;
hsa-mir-561-3p
;
hsa-mir-6809-3p
;
hsa-mir-6833-3p
Nearest miRNA
hsa-mir-101-1/Upstream/345945; hsa-mir-1182/Downstream/74168;
Nearest TSS
ENST00000473358/Upstream/2255;
ENST00000512587/Downstream/6681;
Nearest CpG islands
None/Target,
chr1-CpG: 111/Upstream/2194
,
chr1-CpG: 40/Downstream/42709
Upstream sequence
CCTTCTAAACCACTGATAATGGAGCTTAAGCTTTGAGGCAGGAGATGATGGCAGTTGGAGAAAGAAGAAATTAAGTTGCTGTATATGTCTTGTGGGTATC
Downstream sequence
TCAAATTGCTTTTAAAAGTCAAATATAAAAATTGTAGGGCTAAATATAATTTTTGTGTAATCAATTGTATTGGTGCTCTCCATTCTGATATAGATAATAG
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
Active CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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