Basic Information
VIS ID
TVIS30012805
Fusion event
HIV-COL4A4 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
chr2
Cytoband
q36.3
Reference genome
GRCh37/hg19
Start
227950394/227085678 (Hg38)
End
227950394/227085678 (Hg38)
Orient
-
Location type
Intronic
Target gene
COL4A4
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-26b-5p ; hsa-mir-150-5p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6875-3p ; hsa-mir-1257 ; hsa-mir-302d-5p ; hsa-mir-302b-5p ; hsa-mir-4778-3p ; hsa-mir-4302 ; hsa-mir-4753-3p ; hsa-mir-6873-3p ; hsa-mir-130b-5p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-216b-5p ; hsa-mir-548c-3p
Nearest miRNA
hsa-mir-10b/Upstream/426885; hsa-mir-1244-1/Downstream/386454;
Nearest TSS
ENST00000437798/Upstream/150479; ENST00000487633/Downstream/78558;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/249279, chr2-CpG: 53/Downstream/78285
Upstream sequence
ttccaatcatggcggaaggtgaagtgggaagccagtgtatcacatggtgagagagggagcaagagaggaaagcaggaggtcccagactcctttgaacaac
Downstream sequence
cagatctcctgtgaactaactgagcaagaactaagaactcattcatcaccaaagggatggagctaagccattcgtgagggatccacccccatgaccaaaa
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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