Basic Information
VIS ID
TVIS30004961
Fusion event
HIV-CASP2 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
q34
Reference genome
GRCh37/hg19
Start
142998464/143301371 (Hg38)
End
142998464/143301371 (Hg38)
Orient
+
Location type
Intronic
Target gene
CASP2
miRNAs that regulate target gene
hsa-mir-93-3p ; hsa-mir-421 ; hsa-mir-130b-3p ; hsa-mir-96-5p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p ; hsa-mir-4724-5p ; hsa-mir-6716-5p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-657 ; hsa-mir-3665 ; hsa-mir-708-5p ; hsa-mir-6892-5p ; hsa-mir-4475 ; hsa-mir-6739-5p ; hsa-mir-889-3p ; hsa-mir-655-3p ; hsa-mir-374c-5p ; hsa-mir-5192 ; hsa-mir-873-5p ; hsa-mir-4766-5p ; hsa-mir-6165 ; hsa-mir-429 ; hsa-mir-200c-3p ; hsa-mir-200b-3p ; hsa-mir-8084 ; hsa-mir-4428 ; hsa-mir-4311 ; hsa-mir-125a-5p
Nearest miRNA
hsa-mir-10399/Upstream/826768; hsa-mir-153-2/Downstream/81315;
Nearest TSS
ENST00000635602/Upstream/6767; ENST00000432192/Downstream/14755;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/12654, chr7-CpG: 34/Downstream/44044
Nearest cancer related gene
CASP2(TSG, No orient, 0)
Upstream sequence
TTTTAATCTCTCATGTGGCCAAATGTAAATAGCTAATATTATTGTCATCCTGATCTAGTATTACCGCAGAATATAGTCTGCTGAGGCCCTGCAACATGAC
Downstream sequence
TCAGACTACGGCAGTTACTACCGCAAAAGCAGAAGGAAATGTGGCCTCTCTAAGGAGCAGACCAGTTACTCAGGAAAATAAAGTAAATATACATGAAGTA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate