Basic Information
VIS ID
TVIS30002409
Fusion event
HIV-NLRC3 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
p13.3
Reference genome
GRCh37/hg19
Start
3622410/3572409 (Hg38)
End
3622410/3572409 (Hg38)
Orient
-
Location type
Intronic
Target gene
NLRC3
miRNAs that regulate target gene
hsa-mir-665 ; hsa-mir-6763-5p ; hsa-mir-3150a-3p ; hsa-mir-6825-5p ; hsa-mir-939-5p ; hsa-mir-1343-5p ; hsa-mir-3175 ; hsa-mir-7160-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-8089 ; hsa-mir-4700-5p ; hsa-mir-4667-5p ; hsa-mir-4649-3p ; hsa-mir-4717-3p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-4684-5p ; hsa-mir-3675-3p ; hsa-mir-4293 ; hsa-mir-6771-3p ; hsa-mir-548c-3p ; hsa-mir-1272 ; hsa-mir-3190-5p ; hsa-mir-340-3p ; hsa-mir-3926 ; hsa-mir-4786-5p ; hsa-mir-548s ; hsa-mir-6827-3p ; hsa-mir-6849-3p
Nearest miRNA
hsa-mir-1225/Upstream/86940; hsa-mir-11401/Downstream/1098909;
Nearest TSS
ENST00000527434/Upstream/15415; ENST00000573982/Downstream/4879;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/7809, chr16-CpG: 17/Downstream/16682
Upstream sequence
ttttttttgagacaggatctcactgtgtcacccaggctggagtgcagtggcatgatcagggttcactgcagcctcaacttccctgggctcaagtgatcct
Downstream sequence
ccaaagtagctgggactacaggcgcatgctaccacatccagctaatttttgtattttttgtagagacagggtcttgccatgttgcctaggctggtctcca
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate