Basic Information
VIS ID
TVIS30003984
Fusion event
HIV-OGDH 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
p13
Reference genome
GRCh37/hg19
Start
44663781/44624182 (Hg38)
End
44663781/44624182 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA7D
Target gene
OGDH
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-30a-5p ; hsa-mir-16-5p ; hsa-mir-361-5p ; hsa-mir-552-5p ; hsa-mir-4326 ; hsa-mir-1293 ; hsa-mir-1321 ; hsa-mir-149-3p ; hsa-mir-151a-5p ; hsa-mir-151b ; hsa-mir-1914-3p ; hsa-mir-2278 ; hsa-mir-2467-3p ; hsa-mir-3141 ; hsa-mir-4419a ; hsa-mir-4468 ; hsa-mir-4483 ; hsa-mir-4510 ; hsa-mir-4651 ; hsa-mir-4728-5p ; hsa-mir-4739 ; hsa-mir-4756-5p ; hsa-mir-4779 ; hsa-mir-5194 ; hsa-mir-608 ; hsa-mir-6127 ; hsa-mir-6129 ; hsa-mir-6130 ; hsa-mir-6133 ; hsa-mir-6738-5p ; hsa-mir-6782-5p ; hsa-mir-6785-5p ; hsa-mir-6873-5p ; hsa-mir-6883-5p ; hsa-mir-891a-3p ; hsa-mir-4712-3p
Nearest miRNA
hsa-mir-1183/Upstream/513270; hsa-mir-10399/Downstream/257566;
Nearest TSS
ENST00000635602/Upstream/17543; ENST00000497326/Downstream/42439;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/16958, chr7-CpG: 131/Downstream/124242
Upstream sequence
GCACATGAACTGGTGGCACTGAGCAGGTAGCACTCTTGTGAATACATTTATAGGCCAGGGTCTTTCTCCTCAACAATTAGAGTTGAACATGttttgtttt
Downstream sequence
tgtttttgtttttCTAGTAGCTTTTAAAAAAAAATTATCCTTTCTCTAGAGCATCAGGATCTAGTAGCCTTGTCTCCTAAATACTCATTTTTAAAACCtt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate