Basic Information
VIS ID
TVIS30006228
Fusion event
HIV-CDK17 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
chr12
Cytoband
q23.1
Reference genome
GRCh37/hg19
Start
96783521/96389743 (Hg38)
End
96783521/96389743 (Hg38)
Orient
-
Location type
Intronic
Target gene
CDK17
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-103a-3p ; hsa-mir-98-5p ; hsa-mir-16-5p ; hsa-mir-193b-3p ; hsa-mir-374b-3p ; hsa-mir-4524b-5p ; hsa-mir-4524a-5p ; hsa-mir-4645-3p ; hsa-mir-145-3p ; hsa-mir-1324 ; hsa-mir-101-5p ; hsa-mir-1244 ; hsa-mir-3908 ; hsa-mir-646 ; hsa-mir-580-5p ; hsa-mir-3129-5p ; hsa-mir-199a-3p ; hsa-mir-199b-3p ; hsa-mir-503-5p ; hsa-mir-497-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p ; hsa-mir-6838-5p ; hsa-mir-195-5p ; hsa-mir-424-5p
Nearest miRNA
hsa-let-7i/Upstream/1079759; hsa-mir-1178/Downstream/1102166;
Nearest TSS
ENST00000382841/Upstream/54513; ENST00000554621/Downstream/9621;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/142354, chr12-CpG: 163/Downstream/9670
Upstream sequence
GTTTTAAGAAGACTGTGTAAGCTGAGGAATTTAAAAAGGCACTGACTCCCACAAATTATGAAAATTCATTTTAAATGTCACACTTCAAACAAGACGTTAC
Downstream sequence
CAAGCCATAATCTCGAACtaatatttaaaataaatttattaCTTATAACACACCTACTATAGAAGAGGGTttttttgtttgtttgttttttgtttttttt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate