Basic Information
VIS ID
TVIS30009062
Fusion event
HIV-CCND3 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
chr6
Cytoband
p21.1
Reference genome
GRCh37/hg19
Start
41933887/41966149 (Hg38)
End
41933887/41966149 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
CCND3
miRNAs that regulate target gene
hsa-mir-424-5p ; hsa-mir-16-5p ; hsa-mir-34a-5p ; hsa-mir-195-5p ; hsa-mir-138-5p ; hsa-mir-615-3p ; hsa-mir-324-5p ; hsa-mir-27b-3p ; hsa-let-7b-5p ; hsa-mir-503-5p ; hsa-mir-28-5p ; hsa-mir-708-5p ; hsa-mir-3139 ; hsa-mir-497-5p ; hsa-mir-218-5p ; hsa-mir-7106-5p ; hsa-mir-6722-3p ; hsa-mir-765 ; hsa-mir-6836-5p ; hsa-mir-1909-3p ; hsa-mir-6132 ; hsa-mir-6754-5p ; hsa-mir-4441 ; hsa-mir-4270 ; hsa-mir-4756-5p ; hsa-mir-4739 ; hsa-mir-1321 ; hsa-mir-15b-5p ; hsa-mir-15b-3p
Nearest miRNA
hsa-mir-10398/Upstream/232539; hsa-mir-10524/Downstream/1468393;
Nearest TSS
ENST00000381078/Upstream/24301; ENST00000412701/Downstream/63904;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/24176, chr6-CpG: 48/Downstream/82356
Upstream sequence
tacttaaacctcagtgttcctgcctgtaaaatggggataatataaattgcatttagggatggttatgagaataagagaaaataCCTAAGATGTCCAGTTT
Downstream sequence
ATAGTATGTGCTGTTATTATTATGTTTAGTGCTTGGCTTCAGGTCCTGATCACCTGGTAAGCTTGTTAATTCTGATGGCCACCTTctgggcaacacagag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate