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Viral Integration Site DataBase
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TVIS30002546
Basic Information
VIS ID
TVIS30002546
Fusion event
HIV-SNTB2 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
chr16
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
69291863/69257960 (Hg38)
End
69291863/69257960 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA16B
Target gene
SNTB2
miRNAs that regulate target gene
hsa-mir-155-5p
;
hsa-mir-30b-5p
;
hsa-mir-34a-5p
;
hsa-mir-10a-5p
;
hsa-mir-25-3p
;
hsa-mir-15a-5p
;
hsa-mir-16-5p
;
hsa-mir-103a-3p
;
hsa-mir-107
;
hsa-mir-15b-5p
;
hsa-mir-195-5p
;
hsa-mir-381-3p
;
hsa-mir-424-5p
;
hsa-mir-497-5p
;
hsa-mir-570-5p
;
hsa-mir-624-3p
;
hsa-mir-300
;
hsa-mir-1277-5p
;
hsa-mir-3680-3p
;
hsa-mir-548ag
;
hsa-mir-548ai
;
hsa-mir-4524a-5p
;
hsa-mir-4524b-5p
;
hsa-mir-5689
;
hsa-mir-6838-5p
;
hsa-mir-548ba
;
hsa-mir-17-5p
;
hsa-mir-20a-5p
;
hsa-mir-93-5p
;
hsa-mir-153-3p
;
hsa-mir-106b-5p
;
hsa-mir-20b-5p
;
hsa-mir-519d-3p
;
hsa-mir-3135b
;
hsa-mir-124-3p
;
hsa-mir-548an
;
hsa-mir-5002-5p
;
hsa-mir-5582-5p
;
hsa-mir-646
;
hsa-mir-448
;
hsa-mir-503-5p
;
hsa-mir-33b-5p
;
hsa-mir-33a-5p
;
hsa-mir-4703-5p
;
hsa-mir-3942-5p
;
hsa-mir-3649
;
hsa-mir-140-3p
;
hsa-mir-106a-3p
;
hsa-mir-7641
;
hsa-mir-4430
;
hsa-mir-3652
;
hsa-mir-3622b-5p
;
hsa-mir-122-5p
;
hsa-mir-504-3p
;
hsa-mir-4695-3p
;
hsa-mir-6787-3p
;
hsa-mir-1304-3p
;
hsa-mir-6736-3p
;
hsa-mir-6890-3p
;
hsa-mir-454-3p
;
hsa-mir-4295
;
hsa-mir-3666
;
hsa-mir-301b-3p
;
hsa-mir-301a-3p
;
hsa-mir-130b-3p
;
hsa-mir-130a-3p
;
hsa-mir-5197-5p
;
hsa-mir-3689d
;
hsa-mir-377-5p
;
hsa-mir-4252
;
hsa-mir-4266
;
hsa-mir-4537
;
hsa-mir-455-3p
;
hsa-mir-4695-5p
;
hsa-mir-4779
;
hsa-mir-5694
;
hsa-mir-6086
;
hsa-mir-6134
;
hsa-mir-6499-3p
;
hsa-mir-6516-5p
;
hsa-mir-6851-5p
;
hsa-mir-6880-5p
;
hsa-mir-7847-3p
Nearest miRNA
hsa-mir-1225/Upstream/1024461; hsa-mir-11401/Downstream/307848;
Nearest TSS
ENST00000527434/Upstream/70318;
ENST00000562754/Downstream/41722;
Nearest CpG islands
None/Target,
chr16-CpG: 29/Upstream/69756
,
chr16-CpG: 80/Downstream/53227
Upstream sequence
TAGATgatctacttttttcatcactgtatctccaataccagtgcctagcacaatatttggcatgtagtaggtgctcaataaatgtttatttaagaaagga
Downstream sequence
TAGACCAACCAGAATTCAAATGAAAATGAATATTTGCAATACAAAATATGACAATTTAAAGTATTTGGAGTTATAAAGGGTTTAGAAACTGACAAAAGAG
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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