Basic Information
VIS ID
TVIS30010047
Fusion event
HIV-DNAJC11 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
chr1
Cytoband
p36.31
Reference genome
GRCh37/hg19
Start
6740357/6680297 (Hg38)
End
6740357/6680297 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
DNAJC11
miRNAs that regulate target gene
hsa-mir-7-5p ; hsa-mir-26b-5p ; hsa-let-7b-5p ; hsa-mir-193b-3p ; hsa-mir-324-5p ; hsa-mir-218-5p ; hsa-mir-5196-5p ; hsa-mir-323a-5p ; hsa-mir-4747-5p ; hsa-mir-671-5p ; hsa-mir-6134 ; hsa-mir-4786-3p ; hsa-mir-6858-3p ; hsa-mir-4709-3p ; hsa-mir-3689d ; hsa-mir-6851-5p
Nearest miRNA
hsa-mir-12136/Upstream/250401; hsa-mir-101-1/Downstream/2186205;
Nearest TSS
ENST00000473358/Upstream/12087; ENST00000432429/Downstream/740;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/54517, chr1-CpG: 96/Downstream/20938
Nearest cancer related gene
DNAJC11(TSG, No orient, 0)
Upstream sequence
ttttaaaaatggtggtaaaatatacatataatatttaccattttaaccattttaaagtatacaattcaatagcatgaagtacatttacaatgttgtgtaa
Downstream sequence
ccatcatcactctctatttccagaactttttgccatcccagacagaagctctgtatcTGGTAGTGACTTTAATATTTTATAAACAAATATATCACAGAAT
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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