Basic Information
VIS ID
TVIS30008042
Fusion event
HIV-SAMSN1 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
chr21
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
15901391/14529070 (Hg38)
End
15901391/14529070 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA21A
Target gene
SAMSN1
miRNAs that regulate target gene
hsa-mir-132-3p ; hsa-mir-124-3p ; hsa-mir-7-5p
Nearest miRNA
hsa-mir-10396a/Upstream/804796; hsa-let-7c/Downstream/2010019;
Nearest TSS
ENST00000624081/Upstream/28464; ENST00000449214/Downstream/17243;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/145305, chr21-CpG: 171/Downstream/535105
Upstream sequence
actgaggctcagagtgtttaaatagtttttcctcagtcaacaaaataaagctcatactcagcattcAGTGCATGTGTGATTCTGTATGGTAATGGGTAAT
Downstream sequence
GCTAGtcaatctgatttagcagaatttctaacacttcttgctggccactgtggacgaactcatttatatctctaagcttttgctcctactgttttttatt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate