Basic Information
VIS ID
TVIS30009760
Fusion event
HIV-CKS2 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
chr9
Cytoband
q22.2
Reference genome
GRCh37/hg19
Start
91928751/89313836 (Hg38)
End
91928751/89313836 (Hg38)
Orient
-
Location type
Intronic
Target gene
CKS2
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-let-7b-5p ; hsa-mir-26a-5p ; hsa-mir-548a-3p ; hsa-mir-548e-3p ; hsa-mir-548j-3p ; hsa-mir-548f-3p ; hsa-mir-548x-3p ; hsa-mir-548ae-3p ; hsa-mir-548ah-3p ; hsa-mir-548aj-3p ; hsa-mir-548am-3p ; hsa-mir-548aq-3p ; hsa-mir-548ar-3p ; hsa-mir-548az-3p ; hsa-mir-6847-3p ; hsa-mir-574-3p ; hsa-let-7g-3p ; hsa-let-7a-2-3p ; hsa-let-7c-3p ; hsa-mir-514b-5p ; hsa-mir-4465 ; hsa-mir-513c-5p ; hsa-mir-26b-5p ; hsa-mir-1297 ; hsa-mir-1255b-5p ; hsa-mir-1255a ; hsa-mir-6744-5p ; hsa-mir-5697 ; hsa-mir-1246 ; hsa-mir-493-5p ; hsa-mir-6077 ; hsa-mir-7-5p ; hsa-mir-302a-5p ; hsa-mir-6715b-5p ; hsa-mir-4269 ; hsa-mir-200b-5p ; hsa-mir-200a-5p ; hsa-mir-4511
Nearest miRNA
hsa-mir-101-2/Upstream/1530; hsa-let-7a-1/Downstream/709605;
Nearest TSS
ENST00000422679/Upstream/2638; ENST00000470305/Downstream/4670;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/2112, chr9-CpG: 82/Downstream/4533
Upstream sequence
AAGATAGAACGTAGAAATAAGATAACAGATTATTTGAAGTTAGATGTTAAAGCAGCATTTCAAGAATGTGGGTGATAACTGGTAAGAATTACAAAGAATC
Downstream sequence
ACTATATAGTTCACTGGAATTGATGAAAACTCTACAAATTATGGTAGTAAGCTATGACTTGGTGGCCTTAAGGCAATCTAACAACACAGTAGAATTTTTC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate