Basic Information
VIS ID
TVIS30001555
Fusion event
HIV-YBX1 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
p34.2
Reference genome
GRCh37/hg19
Start
43151651/42685980 (Hg38)
End
43151651/42685980 (Hg38)
Orient
+
Location type
Intronic
Target gene
YBX1
miRNAs that regulate target gene
hsa-mir-137 ; hsa-mir-124-3p ; hsa-mir-16-5p ; hsa-mir-1307-3p ; hsa-mir-1292-5p ; hsa-mir-1296-5p ; hsa-mir-935 ; hsa-mir-744-5p ; hsa-mir-615-3p ; hsa-mir-605-5p ; hsa-mir-484 ; hsa-mir-106b-5p ; hsa-mir-149-5p ; hsa-mir-34a-5p ; hsa-mir-25-3p ; hsa-mir-20a-5p ; hsa-mir-4451 ; hsa-mir-6744-5p ; hsa-mir-6832-5p ; hsa-mir-4650-3p ; hsa-mir-8069 ; hsa-mir-6831-3p ; hsa-mir-1537-3p ; hsa-mir-3529-5p ; hsa-mir-379-5p ; hsa-mir-382-5p
Nearest miRNA
hsa-mir-12136/Upstream/1928608; hsa-mir-101-1/Downstream/485672;
Nearest TSS
ENST00000473358/Upstream/2824; ENST00000494155/Downstream/54160;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/2635, chr1-CpG: 15/Downstream/52464
Nearest cancer related gene
YBX1(OG, No orient, 0)
Upstream sequence
CCTGATGGTTATATTGTGAAGAAGGTGCTAAGTAACATGAGCATAGAGCTTTTAAAAATAGCAGAAGTTTTGGCTTTATTTTGTTAGACTGTGTAATCTA
Downstream sequence
GAAATTCTAAGAAATTCATTGAGTTATTCTTTTGTGAACTGTGTCTACAAAACATAATCGGAGAATGTGACTAGAGGGGTTTATTAGCTCCCCCCAGATT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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