Basic Information
VIS ID
TVIS30009528
Fusion event
HIV-NSD3 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
chr8
Cytoband
p11.23
Reference genome
GRCh37/hg19
Start
38229154/38371636 (Hg38)
End
38229154/38371636 (Hg38)
Orient
+
Location type
Intronic
Target gene
NSD3
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-155-5p ; hsa-mir-192-5p ; hsa-mir-21-5p ; hsa-mir-196b-5p ; hsa-mir-301a-3p ; hsa-mir-10b-5p ; hsa-mir-203b-3p ; hsa-mir-7158-3p ; hsa-mir-203a-3p ; hsa-mir-526b-5p ; hsa-mir-4635
Nearest miRNA
hsa-mir-124-1/Upstream/8414288; hsa-mir-10400/Downstream/2899412;
Nearest TSS
ENST00000518652/Upstream/35655; ENST00000607047/Downstream/9185;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/102122, chr8-CpG: 160/Downstream/10035
Nearest cancer related gene
NSD3(TSG, No orient, 0)
Upstream sequence
ATGCAGGGGAAAAATTAGCAAGAAATATATTTAACCTTCAGTGGGAGTAAAAAAGAATAACATGCTATTGCACTACAGAAAAGAATTCAAGGATACAATA
Downstream sequence
AAACAAAGCAAGAAGTTTCTCACCACAATCTAATATGAAATACTATATTCTGATGCATTTGAATCTTGCAGAGATCATACAAAAGGAGACCACTTAGAGT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate