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Viral Integration Site DataBase
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TVIS30011729
Basic Information
VIS ID
TVIS30011729
Fusion event
HIV-ZNF740 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
chr12
Cytoband
q13.13
Reference genome
GRCh37/hg19
Start
53577566/53183782 (Hg38)
End
53577566/53183782 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12A
Target gene
ZNF740
miRNAs that regulate target gene
hsa-mir-124-3p
;
hsa-mir-450a-2-3p
;
hsa-mir-6857-5p
;
hsa-mir-6763-5p
;
hsa-mir-3150a-3p
;
hsa-mir-6810-5p
;
hsa-mir-2110
;
hsa-mir-3117-3p
;
hsa-mir-6825-5p
;
hsa-mir-939-5p
;
hsa-mir-1343-5p
;
hsa-mir-3175
;
hsa-mir-6883-5p
;
hsa-mir-6785-5p
;
hsa-mir-4728-5p
;
hsa-mir-149-3p
;
hsa-mir-6878-5p
;
hsa-mir-6797-5p
;
hsa-mir-1249-5p
;
hsa-mir-6133
;
hsa-mir-6130
;
hsa-mir-6129
;
hsa-mir-6127
;
hsa-mir-4510
;
hsa-mir-4419a
;
hsa-mir-4427
;
hsa-mir-3140-5p
;
hsa-mir-6760-5p
;
hsa-mir-8083
;
hsa-mir-3169
;
hsa-mir-4759
;
hsa-mir-4773
;
hsa-mir-587
;
hsa-mir-2355-5p
;
hsa-mir-627-3p
;
hsa-mir-6734-3p
;
hsa-mir-6756-3p
;
hsa-mir-3127-3p
;
hsa-mir-6793-3p
;
hsa-mir-589-3p
;
hsa-mir-7-2-3p
;
hsa-mir-7-1-3p
;
hsa-mir-5688
;
hsa-mir-495-3p
;
hsa-mir-605-5p
;
hsa-mir-1207-5p
;
hsa-mir-1250-3p
;
hsa-mir-1305
;
hsa-mir-153-5p
;
hsa-mir-1537-5p
;
hsa-mir-211-3p
;
hsa-mir-4721
;
hsa-mir-4736
;
hsa-mir-4763-3p
;
hsa-mir-5088-5p
;
hsa-mir-607
;
hsa-mir-6758-3p
;
hsa-mir-7150
;
hsa-mir-7845-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/126770; hsa-let-7i/Downstream/807956;
Nearest TSS
ENST00000382841/Upstream/2873;
ENST00000549739/Downstream/1603;
Nearest CpG islands
None/Target,
chr12-CpG: 104/Upstream/2416
,
chr12-CpG: 48/Downstream/13688
Upstream sequence
GAGAAATGCTGAACTCCAAAAATCATATCAGTTGCAATTGGTAAATACTTAGGGAGTTTAAAATCTAAAGGGAGAAATAgcctgtagtcccaggacctta
Downstream sequence
ggagactgaggctggaggattgtttaagctcaggagttccacaccagcctaggcaacatggtgaaaccccgtctctataaatacaaaaaaaaatagccgg
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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