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Viral Integration Site DataBase
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TVIS30012210
Basic Information
VIS ID
TVIS30012210
Fusion event
HIV-PAFAH1B1 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
chr17
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
2558647/2655353 (Hg38)
End
2558647/2655353 (Hg38)
Orient
-
Location type
Intronic
Target gene
PAFAH1B1
miRNAs that regulate target gene
hsa-mir-375
;
hsa-mir-215-5p
;
hsa-mir-192-5p
;
hsa-mir-101-3p
;
hsa-mir-18a-5p
;
hsa-mir-100-5p
;
hsa-mir-10a-5p
;
hsa-mir-10b-5p
;
hsa-mir-339-5p
;
hsa-mir-548a-3p
;
hsa-mir-616-3p
;
hsa-mir-548e-3p
;
hsa-mir-548f-3p
;
hsa-mir-1250-3p
;
hsa-mir-548ar-3p
;
hsa-mir-5582-3p
;
hsa-mir-548az-3p
;
hsa-mir-6732-3p
;
hsa-mir-6771-3p
;
hsa-mir-105-5p
;
hsa-mir-7853-5p
;
hsa-mir-32-5p
;
hsa-mir-92a-3p
;
hsa-mir-92b-3p
;
hsa-mir-17-5p
;
hsa-mir-20a-5p
;
hsa-mir-93-5p
;
hsa-mir-106b-5p
;
hsa-mir-20b-5p
;
hsa-mir-519d-3p
;
hsa-mir-15a-5p
;
hsa-mir-16-5p
;
hsa-mir-15b-5p
;
hsa-mir-195-5p
;
hsa-mir-136-5p
;
hsa-mir-885-5p
;
hsa-mir-607
;
hsa-mir-3156-3p
;
hsa-mir-3671
;
hsa-mir-630
;
hsa-mir-4999-5p
;
hsa-mir-4718
;
hsa-mir-1537-5p
;
hsa-mir-4742-3p
;
hsa-mir-532-3p
;
hsa-mir-4301
;
hsa-mir-483-3p
Nearest miRNA
hsa-mir-132/Upstream/604973; hsa-mir-10226/Downstream/37508;
Nearest TSS
ENST00000595228/Upstream/45814;
ENST00000609078/Downstream/10028;
Nearest CpG islands
None/Target,
chr17-CpG: 26/Upstream/60624
,
chr17-CpG: 68/Downstream/34381
Nearest cancer related gene
PAFAH1B1
(TSG, No orient, 0)
Upstream sequence
AAGATATGATCAAGGTCAAAATTGTTGACTTTCTGGAGAATTCATACAAAGCCCTTTTACATACCACATCACATTGCATTTCACTGAAAGATGGAGGGTA
Downstream sequence
TTCTAGAGAATTGTATTAGAAAGAGAAGACACATCGTAggccaggcacagtggctcacttctgtaatcccagcaccttgggaggccgaagcaggtggatc
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
Resting CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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