Basic Information
VIS ID
TVIS30001591
Fusion event
HIV-KCNC4 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
p13.3
Reference genome
GRCh37/hg19
Start
110757257/110214635 (Hg38)
End
110757257/110214635 (Hg38)
Orient
-
Location type
Intronic
Target gene
KCNC4
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-103a-3p ; hsa-mir-16-5p ; hsa-let-7b-5p ; hsa-mir-369-3p ; hsa-mir-374a-5p ; hsa-mir-374b-5p ; hsa-mir-3924 ; hsa-mir-4517 ; hsa-mir-5583-3p ; hsa-mir-5692c ; hsa-mir-5692b ; hsa-mir-3941 ; hsa-mir-625-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-4801 ; hsa-mir-4731-3p ; hsa-mir-25-3p ; hsa-mir-3176 ; hsa-mir-3179 ; hsa-mir-32-5p ; hsa-mir-3622a-3p ; hsa-mir-3622b-3p ; hsa-mir-363-3p ; hsa-mir-367-3p ; hsa-mir-3922-3p ; hsa-mir-3936 ; hsa-mir-4757-5p ; hsa-mir-6728-3p ; hsa-mir-6744-3p ; hsa-mir-6765-3p ; hsa-mir-6864-5p ; hsa-mir-6878-3p ; hsa-mir-7515 ; hsa-mir-92a-3p ; hsa-mir-92b-3p
Nearest miRNA
hsa-mir-101-1/Upstream/615668; hsa-mir-11399/Downstream/2247135;
Nearest TSS
ENST00000473358/Upstream/2487; ENST00000636402/Downstream/5081;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/2463, chr1-CpG: 31/Downstream/8408
Upstream sequence
cattaatctctaatcctcccaataaacttaaaacccggtgattatccccgtttaatagattgaggctgtgagaaggtaaacaacttgcctgagatcacac
Downstream sequence
agccagatagtggccaggctttgaatcaaagccagagtccctgactcccaagcccttgctcttgtgattacaacacCTTCTTTCCACTGAACTAGGCTGT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate