Basic Information
VIS ID
TVIS30013532
Fusion event
HIV-CDK13 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
chr7
Cytoband
p14.1
Reference genome
GRCh37/hg19
Start
40015905/39976306 (Hg38)
End
40015905/39976306 (Hg38)
Orient
+
Location type
Intronic
Target gene
CDK13
miRNAs that regulate target gene
hsa-mir-133b ; hsa-mir-29b-2-5p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6875-3p ; hsa-mir-664b-3p ; hsa-mir-579-3p ; hsa-mir-5696 ; hsa-mir-664a-3p ; hsa-mir-30e-3p ; hsa-mir-30d-3p ; hsa-mir-30a-3p ; hsa-mir-8061 ; hsa-mir-4760-5p ; hsa-mir-6794-3p ; hsa-mir-376a-5p ; hsa-mir-372-5p ; hsa-mir-888-5p
Nearest miRNA
hsa-mir-1183/Upstream/3056874; hsa-mir-10399/Downstream/3174589;
Nearest TSS
ENST00000635602/Upstream/24555; ENST00000642626/Downstream/7799;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/24293, chr7-CpG: 109/Downstream/157976
Upstream sequence
cacttgaacccgggaggcggaggttgcagtgagccgagatcatgccattgcactccagcctgggcaacagagcgagattccgtctctctctctctctctc
Downstream sequence
tctctctctctctctctcacacacacacacacacacacacacacacacacacaGAAACAAATGGAGGAGaaagagatagtgtggtagcaataaatagtgc
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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