Basic Information
VIS ID
TVIS30008702
Fusion event
HIV-CASP3 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
chr4
Cytoband
q35.1
Reference genome
GRCh37/hg19
Start
185564997/184643843 (Hg38)
End
185564997/184643843 (Hg38)
Orient
-
Location type
Intronic
Target gene
CASP3
miRNAs that regulate target gene
hsa-mir-98-5p ; hsa-let-7a-5p ; hsa-mir-30d-5p ; hsa-mir-138-5p ; hsa-mir-375 ; hsa-mir-128-3p ; hsa-mir-221-3p ; hsa-mir-26b-5p ; hsa-mir-196a-5p ; hsa-mir-421 ; hsa-let-7g-5p ; hsa-mir-651-3p ; hsa-mir-6124 ; hsa-let-7b-3p ; hsa-mir-30c-5p ; hsa-mir-582-5p ; hsa-mir-363-3p ; hsa-mir-885-5p ; hsa-mir-374a-5p ; hsa-mir-382-5p ; hsa-mir-3680-3p ; hsa-mir-4666b ; hsa-mir-5011-3p ; hsa-mir-6797-3p ; hsa-mir-6076 ; hsa-mir-888-5p ; hsa-mir-562 ; hsa-mir-548n ; hsa-mir-30e-5p ; hsa-mir-30a-5p ; hsa-mir-30b-5p ; hsa-mir-224-5p ; hsa-mir-26a-1-3p ; hsa-mir-34a-5p ; hsa-mir-155-5p ; hsa-let-7c-5p
Nearest miRNA
hsa-mir-12113/Upstream/2474465; hsa-mir-3945/Downstream/207170;
Nearest TSS
ENST00000502981/Upstream/18813; ENST00000509538/Downstream/4749;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/168816, chr4-CpG: 110/Downstream/4964
Upstream sequence
ATTGTGATTTAAAAGATTTATCCTGGCATAGCAATGGACTTAACATGAATTGTTTCTTACTGGGCTGATGTGTGTGTAATTCTGTTCAATTCAGGATGCT
Downstream sequence
GCTGCTAAGAAAGGAAATTTCTGAACACATATGTTTATGGCAAAGTTCTCAGTAGACCAACTGATATTACTTAGAAACCTGGAACTCAGGTCTCAGAATC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate