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Viral Integration Site DataBase
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TVIS30009328
Basic Information
VIS ID
TVIS30009328
Fusion event
HIV-ZNF273 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
chr7
Cytoband
q11.21
Reference genome
GRCh37/hg19
Start
64361379/64901001 (Hg38)
End
64361379/64901001 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA7J
Target gene
ZNF273
miRNAs that regulate target gene
hsa-mir-155-5p
;
hsa-mir-215-5p
;
hsa-mir-192-5p
;
hsa-mir-190a-3p
;
hsa-mir-107
;
hsa-mir-103a-3p
;
hsa-mir-628-3p
;
hsa-mir-5011-5p
;
hsa-mir-3923
;
hsa-mir-3121-3p
;
hsa-mir-23c
;
hsa-mir-23b-3p
;
hsa-mir-23a-3p
;
hsa-mir-130a-5p
;
hsa-mir-5580-3p
;
hsa-mir-4428
;
hsa-mir-548s
;
hsa-mir-6794-3p
;
hsa-mir-3926
;
hsa-mir-4786-5p
;
hsa-mir-3190-5p
;
hsa-mir-6849-3p
;
hsa-mir-4639-3p
Nearest miRNA
hsa-mir-1183/Upstream/221825; hsa-mir-10399/Downstream/2213321;
Nearest TSS
ENST00000635602/Upstream/10901;
ENST00000489672/Downstream/2246;
Nearest CpG islands
None/Target,
chr7-CpG: 39/Upstream/11228
,
chr7-CpG: 62/Downstream/46210
Upstream sequence
aacttctgctctgaacctaactctgtgtgtgtccatgttctagttttccatgccacgagGATTATAGGCATGAGCCAAGGCACCAAGCTAGTATGCCttt
Downstream sequence
atttatttttttttttttgtagagagagtcttgctctatctcccaggctggagtgcagtggctccatctcggctcattgcagcctctgcctcctgagttc
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
Central Memory CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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