Basic Information
VIS ID
TVIS30011642
Fusion event
HIV-ARCN1 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
chr11
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
118448430/118577715 (Hg38)
End
118448430/118577715 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA11B
Target gene
ARCN1
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-361-5p ; hsa-mir-130b-3p ; hsa-mir-98-5p ; hsa-mir-93-5p ; hsa-let-7b-5p ; hsa-mir-652-3p ; hsa-mir-193b-3p ; hsa-mir-30c-5p ; hsa-mir-92a-3p ; hsa-mir-26a-5p ; hsa-let-7e-5p ; hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p ; hsa-mir-1185-1-3p ; hsa-mir-770-5p ; hsa-mir-1185-2-3p
Nearest miRNA
hsa-mir-10392/Upstream/5127627; hsa-let-7a-2/Downstream/66285;
Nearest TSS
ENST00000527297/Upstream/4745; ENST00000525427/Downstream/28725;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/4799, chr11-CpG: 276/Downstream/29877
Upstream sequence
acgcactttatcggttactctctcatgttacttaacacattctgcctcatattacagttatttgtgtttgtgtcttatccctattaagcttcttgtaggc
Downstream sequence
agaatgctagcctgtgtcatcttaattctcagaaagcatgttgtatgtatagtagatgttcgataaataattactcagttaatTCTTATAATATCGCAAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate