Basic Information
VIS ID
TVIS30004412
Fusion event
HIV-SIPA1 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
chr11
Cytoband
q13.1
Reference genome
GRCh37/hg19
Start
65410545/65643074 (Hg38)
End
65410545/65643074 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
SIPA1
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-6780a-5p ; hsa-mir-3689c ; hsa-mir-6779-5p ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-7704 ; hsa-mir-6825-5p ; hsa-mir-6799-5p ; hsa-mir-6785-5p ; hsa-mir-6883-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-6787-5p ; hsa-mir-663a ; hsa-mir-1908-5p ; hsa-mir-766-5p ; hsa-mir-661 ; hsa-mir-6087 ; hsa-mir-3192-5p ; hsa-mir-542-5p ; hsa-mir-6777-5p ; hsa-mir-6889-5p
Nearest miRNA
hsa-mir-10392/Upstream/6705; hsa-let-7a-2/Downstream/6118;
Nearest TSS
ENST00000527297/Upstream/956; ENST00000530226/Downstream/2737;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/418, chr11-CpG: 148/Downstream/3233
Upstream sequence
gtggaatctcagctcactgcaacctctgccttccgggttcaagagattctcctgcctcagcctcctgagtagctgggattacaggtgcatgccaccacgc
Downstream sequence
ccagctaatttttgtatttgtagtagagatgggggttttaccatgttggccacgctggttttgaactcctgaccttgtgatctgcccacctcggcctccc
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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