Basic Information
VIS ID
TVIS30010252
Fusion event
HIV-COPZ1 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
54742270/54348486 (Hg38)
End
54742270/54348486 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12A
Target gene
COPZ1
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-423-5p ; hsa-let-7a-5p ; hsa-mir-3151-5p ; hsa-mir-486-3p ; hsa-mir-548au-3p ; hsa-mir-449b-5p ; hsa-mir-449a ; hsa-mir-34c-5p ; hsa-mir-4720-3p ; hsa-mir-34a-5p ; hsa-mir-4804-3p ; hsa-mir-6868-5p ; hsa-mir-1296-3p ; hsa-mir-125a-5p ; hsa-mir-125b-5p ; hsa-mir-2110 ; hsa-mir-27a-3p ; hsa-mir-27b-3p ; hsa-mir-28-3p ; hsa-mir-3166 ; hsa-mir-4271 ; hsa-mir-4319 ; hsa-mir-4324 ; hsa-mir-4471 ; hsa-mir-450a-2-3p ; hsa-mir-4725-3p ; hsa-mir-4725-5p ; hsa-mir-513a-5p ; hsa-mir-6761-5p ; hsa-mir-6780b-5p ; hsa-mir-6810-5p ; hsa-mir-6857-5p ; hsa-mir-708-3p ; hsa-mir-8059 ; hsa-mir-922
Nearest miRNA
hsa-mir-1244-3/Upstream/11172; hsa-let-7i/Downstream/2846018;
Nearest TSS
ENST00000382841/Upstream/8114; ENST00000548617/Downstream/5175;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/67282, chr12-CpG: 18/Downstream/20787
Upstream sequence
CCTTCTTGGAGATGGATCCAGTCATCTGAGGCAGAGGAGTGTCTGTTTTGTCTTTTAAAGTGTTACATAGgactgagcgtggtggctcacacctgtaatc
Downstream sequence
ccagcactttgggaagccgaggctggcggatcacaaggtcaggagttcgagaccagcctgaccaacatggtgaaaccctgtctctactaaagacacaaaa
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate