Basic Information
VIS ID
TVIS30005187
Fusion event
HIV-SF3A3 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
chr1
Cytoband
p34.3
Reference genome
GRCh37/hg19
Start
38440571/37974899 (Hg38)
End
38440571/37974899 (Hg38)
Orient
+
Location type
Intronic
Target gene
SF3A3
miRNAs that regulate target gene
hsa-mir-103a-3p ; hsa-mir-16-5p ; hsa-mir-615-3p ; hsa-mir-92a-3p ; hsa-mir-4663 ; hsa-mir-4429 ; hsa-mir-320d ; hsa-mir-320c ; hsa-mir-320b ; hsa-mir-320a ; hsa-mir-129-5p ; hsa-mir-8055 ; hsa-mir-6832-3p ; hsa-mir-3130-3p ; hsa-mir-4267 ; hsa-mir-6736-3p ; hsa-mir-500b-3p
Nearest miRNA
hsa-mir-12136/Upstream/473905; hsa-mir-101-1/Downstream/114332;
Nearest TSS
ENST00000473358/Upstream/14206; ENST00000486563/Downstream/4300;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/42850, chr1-CpG: 37/Downstream/14661
Upstream sequence
accattccctccctcataagccatattccacacacactgcatttctcatttcctgaacatataattttatctaatactgttgtatctttgtgtttgctgt
Downstream sequence
ttcctctaccagaaactttttcttctcccttctctctttctacttagaagactcaacctcactttattcaggTATGTATCACAttatattgtaattattt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate