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Viral Integration Site DataBase
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TVIS30001878
Basic Information
VIS ID
TVIS30001878
Fusion event
HIV-CAPN1 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
chr11
Cytoband
q13.1
Reference genome
GRCh37/hg19
Start
64963436/65195965 (Hg38)
End
64963436/65195965 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
CAPN1
miRNAs that regulate target gene
hsa-mir-1-3p
;
hsa-mir-34a-5p
;
hsa-mir-140-5p
;
hsa-mir-487a-5p
;
hsa-mir-487b-5p
;
hsa-mir-1205
;
hsa-mir-4460
;
hsa-mir-203b-5p
;
hsa-mir-6718-5p
;
hsa-mir-6811-5p
;
hsa-mir-6511b-5p
;
hsa-mir-6809-5p
;
hsa-mir-4708-3p
;
hsa-mir-17-3p
;
hsa-mir-1184
;
hsa-mir-3158-5p
;
hsa-mir-4742-5p
;
hsa-mir-1249-5p
;
hsa-mir-1321
;
hsa-mir-1343-5p
;
hsa-mir-140-3p
;
hsa-mir-149-3p
;
hsa-mir-151a-5p
;
hsa-mir-151b
;
hsa-mir-3173-3p
;
hsa-mir-3177-3p
;
hsa-mir-3188
;
hsa-mir-4419a
;
hsa-mir-4445-3p
;
hsa-mir-4493
;
hsa-mir-4510
;
hsa-mir-4728-5p
;
hsa-mir-4739
;
hsa-mir-4747-5p
;
hsa-mir-4756-5p
;
hsa-mir-4779
;
hsa-mir-5196-5p
;
hsa-mir-548al
;
hsa-mir-6127
;
hsa-mir-6129
;
hsa-mir-6130
;
hsa-mir-6133
;
hsa-mir-6785-5p
;
hsa-mir-6797-5p
;
hsa-mir-6883-5p
;
hsa-mir-6891-5p
;
hsa-mir-7150
;
hsa-mir-939-5p
;
hsa-mir-9500
Nearest miRNA
hsa-mir-10392/Upstream/65987; hsa-let-7a-2/Downstream/248493;
Nearest TSS
ENST00000527297/Upstream/7720;
ENST00000530495/Downstream/7407;
Nearest CpG islands
None/Target,
chr11-CpG: 30/Upstream/11401
,
chr11-CpG: 26/Downstream/8749
Upstream sequence
ttggtgagaagttttttgttgttgttgattcagtctttttattattataggtctatttagattttctatttttcctaggtcagttttggtgctttgtttc
Downstream sequence
tttctaggaatttgttctttttgtctatattatctaatttattatcatataattgtctatagtgtttccttgtaatctttttatttttgttaggctggta
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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