Basic Information
VIS ID
TVIS30002245
Fusion event
HIV-NUMB 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
chr14
Cytoband
q24.3
Reference genome
GRCh37/hg19
Start
73778529/73311821 (Hg38)
End
73778529/73311821 (Hg38)
Orient
-
Location type
Intronic
Target gene
NUMB
miRNAs that regulate target gene
hsa-mir-31-5p ; hsa-mir-335-5p ; hsa-mir-375 ; hsa-mir-29c-3p ; hsa-mir-103a-3p ; hsa-mir-146a-5p ; hsa-mir-1277-5p ; hsa-mir-4684-5p ; hsa-mir-107 ; hsa-mir-4738-3p ; hsa-mir-1184 ; hsa-mir-6074 ; hsa-mir-4496 ; hsa-mir-3163 ; hsa-mir-4703-5p ; hsa-mir-3942-5p ; hsa-mir-509-5p ; hsa-mir-4418 ; hsa-mir-509-3-5p ; hsa-mir-548av-3p ; hsa-let-7c-5p ; hsa-mir-34a-5p
Nearest miRNA
hsa-mir-208a/Upstream/794923; hsa-mir-1185-1/Downstream/446926;
Nearest TSS
ENST00000550708/Upstream/12446; ENST00000304061/Downstream/43948;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/65618, chr14-CpG: 55/Downstream/146060
Nearest cancer related gene
NUMB(TSG, No orient, 0)
Upstream sequence
GATTCAAAGAATAACAAAGTATCAAAATTTATGAGGAACTGTACTGGATAAAAACTCCGTAACATATACTGTTCTGTAAGATGCTTCATTTTGAGGTTTC
Downstream sequence
ATCAAACCACAATTGACCTAGCAAACTCAATAAATCAAGTCTCTCTCACCAGTCTATTTCTCGTAGATTAGGGTGGAGATGAATTAAGTGATGGCAACTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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