Basic Information
VIS ID
TVIS30008482
Fusion event
HIV-SEC62 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
chr3
Cytoband
q26.2
Reference genome
GRCh37/hg19
Start
169710709/169992921 (Hg38)
End
169710709/169992921 (Hg38)
Orient
-
Location type
Exonic
Target gene
SEC62
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-1-3p ; hsa-mir-33a-3p ; hsa-mir-409-3p ; hsa-mir-4307 ; hsa-mir-4662a-5p ; hsa-mir-3935 ; hsa-mir-6831-5p ; hsa-mir-3927-3p ; hsa-mir-577 ; hsa-mir-513b-3p ; hsa-mir-497-3p ; hsa-mir-6809-3p ; hsa-mir-4753-3p ; hsa-mir-2117 ; hsa-mir-323b-3p ; hsa-mir-5584-3p ; hsa-mir-6874-3p ; hsa-mir-148b-5p ; hsa-mir-3168
Nearest miRNA
hsa-let-7g/Upstream/1440972; hsa-mir-1224/Downstream/430182;
Nearest TSS
ENST00000440867/Upstream/7206; ENST00000482813/Downstream/45008;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/25703, chr3-CpG: 104/Downstream/44885
Nearest cancer related gene
SEC62(OG, No orient, 0)
Upstream sequence
ATGAGGAGGGGAAAGTAGGACCAGGAAATCATGGAACAGAAGGCTCGGGGGGAGAACGGCATTCAGACACGGACAGTGACAGGAGGGAAGATGATCGATC
Downstream sequence
CCAGCACAGTAGTGGAAATGGAAATGATTTTGAAATGATAACAAAAGAGGAACTGGAACAGCAAACAGATGGGGATTGTGAAGAGGATGAGGAAGAGGAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate