Basic Information
VIS ID
TVIS30008790
Fusion event
HIV-FCHO2 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
chr5
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
72310695/73014868 (Hg38)
End
72310695/73014868 (Hg38)
Orient
-
Location type
Intronic
Target gene
FCHO2
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-93-5p ; hsa-mir-181d-5p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-33a-3p ; hsa-mir-106a-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-409-3p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-548t-5p ; hsa-mir-3674 ; hsa-mir-548az-5p ; hsa-mir-6736-3p ; hsa-mir-32-5p ; hsa-mir-92a-3p ; hsa-mir-92b-3p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-3680-5p ; hsa-mir-340-5p ; hsa-mir-548c-3p ; hsa-mir-552-5p ; hsa-mir-1273e ; hsa-mir-200b-5p ; hsa-mir-3163 ; hsa-mir-200a-5p ; hsa-mir-8068 ; hsa-mir-548n ; hsa-mir-5583-5p ; hsa-mir-3129-3p
Nearest miRNA
hsa-mir-10397/Upstream/136205; hsa-mir-103a-1/Downstream/9825287;
Nearest TSS
ENST00000502646/Upstream/58797; ENST00000511264/Downstream/19600;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/17866, chr5-CpG: 116/Downstream/104916
Upstream sequence
AGATTTTAATGTGTAATGGCTCCAAATTCggctgggtgcggtggctcacgcctgtatcccagcacttttggaggctgaggcaggtggatcatgaggtcag
Downstream sequence
gagatcgagactttcctggctaacacggtgaaacccgtctctactaaaaatacaaaaaattagccagcatggtggtgggcacctgtagtccaagctactc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate