Basic Information
VIS ID
TVIS30002507
Fusion event
HIV-OGFOD1 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
chr16
Cytoband
q13
Reference genome
GRCh37/hg19
Start
56490055/56456143 (Hg38)
End
56490055/56456143 (Hg38)
Orient
-
Location type
Intronic
Target gene
OGFOD1
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-155-5p ; hsa-mir-34a-5p ; hsa-mir-30a-5p ; hsa-mir-615-3p ; hsa-mir-222-3p ; hsa-mir-4668-5p ; hsa-mir-3613-3p ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-23b-5p ; hsa-mir-23a-5p ; hsa-mir-4284 ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-4772-3p ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-1304-3p ; hsa-mir-6741-3p ; hsa-mir-1281 ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-660-3p ; hsa-mir-4485-5p ; hsa-mir-6890-3p ; hsa-mir-5571-5p ; hsa-mir-4279 ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-939-3p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p
Nearest miRNA
hsa-mir-1225/Upstream/210520; hsa-mir-11401/Downstream/402375;
Nearest TSS
ENST00000527434/Upstream/3944; ENST00000565209/Downstream/1986;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/4281, chr16-CpG: 59/Downstream/63474
Upstream sequence
tttcgcttgtactactgcactgaaactacacttgtcaagatcacccataacctccacattactaaatctgataatcagttttcagttcttccttgtctca
Downstream sequence
tcagcagcatttgacctactatatcactccttcctcctggagacttttttttcactttactttcaggttaccatgctctcttggtttctcttcttcctca
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate