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Viral Integration Site DataBase
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TVIS30004426
Basic Information
VIS ID
TVIS30004426
Fusion event
HIV-FCHSD2 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
q13.4
Reference genome
GRCh37/hg19
Start
72790516/73079471 (Hg38)
End
72790516/73079471 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
FCHSD2
miRNAs that regulate target gene
hsa-mir-124-3p
;
hsa-mir-7159-3p
;
hsa-mir-4668-5p
;
hsa-mir-210-3p
;
hsa-mir-548o-3p
;
hsa-mir-1323
;
hsa-mir-4272
;
hsa-mir-3613-3p
;
hsa-mir-6074
;
hsa-mir-3622a-5p
;
hsa-mir-548an
;
hsa-mir-4482-3p
;
hsa-mir-4474-5p
;
hsa-mir-4662a-5p
;
hsa-mir-6791-3p
;
hsa-mir-6829-3p
;
hsa-mir-449b-3p
;
hsa-mir-27b-3p
;
hsa-mir-27a-3p
Nearest miRNA
hsa-mir-10392/Upstream/295879; hsa-let-7a-2/Downstream/1319766;
Nearest TSS
ENST00000527297/Upstream/90459;
ENST00000541254/Downstream/60590;
Nearest CpG islands
None/Target,
chr11-CpG: 30/Upstream/256742
,
chr11-CpG: 192/Downstream/61660
Upstream sequence
gtatttttagtagagacggggtttcaccatgttggtcaggctggtctcgaactcctgatgtcgtgatccgcccgcttcagcctcccaaagtgctgggatt
Downstream sequence
acaggcatgagccactttgcctggccTAGAAGTAAATAATTTAAATAATGCAACTGTCCTCTCTGACCACATCCTGTCCCCATACAGGAAATGCAAATAA
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
Bcl-2 transduced CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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