Basic Information
VIS ID
TVIS30009084
Fusion event
HIV-ICK 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
chr6
Cytoband
p12.1
Reference genome
GRCh37/hg19
Start
52883145/53018347 (Hg38)
End
52883145/53018347 (Hg38)
Orient
-
Location type
Exonic
Target gene
ICK
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-101-3p ; hsa-mir-4760-3p ; hsa-mir-3942-3p ; hsa-mir-449c-3p ; hsa-mir-27b-3p ; hsa-mir-27a-3p ; hsa-mir-513a-5p ; hsa-mir-6825-5p ; hsa-mir-7106-5p ; hsa-mir-766-5p ; hsa-mir-6077 ; hsa-mir-8086 ; hsa-mir-6770-5p ; hsa-mir-3179 ; hsa-mir-4310 ; hsa-mir-7157-5p ; hsa-mir-4756-3p ; hsa-mir-3919 ; hsa-mir-205-3p ; hsa-mir-3154 ; hsa-mir-943 ; hsa-mir-4439 ; hsa-mir-3136-5p ; hsa-mir-6516-3p ; hsa-mir-3152-3p ; hsa-mir-205-5p ; hsa-mir-892a ; hsa-mir-6715b-3p ; hsa-mir-6715a-3p ; hsa-mir-548c-3p
Nearest miRNA
hsa-mir-10398/Upstream/869306; hsa-mir-10524/Downstream/258646;
Nearest TSS
ENST00000381078/Upstream/22969; ENST00000461222/Downstream/33644;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/23378, chr6-CpG: 67/Downstream/43133
Upstream sequence
TGCCAGTGCTGAACAGGGCTGAGCGGAGGAAGCATGGGAAGCTGTTGGCTTTGGCCCACTGGCCTTTGTTTTGTATCATTACCTTTTTTGGTGTCCCCAG
Downstream sequence
CACTTGGCAAATTTTGAATATTGTGTCAATTTCACTGGCTCCAGGGAAGAGTGGCCTGAGGGTGTAAACTTCTGCCATGATGCAGCCCACCGCCCAGACG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate