Basic Information
VIS ID
TVIS30009487
Fusion event
HIV-CSGALNACT1 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
chr8
Cytoband
p21.3
Reference genome
GRCh37/hg19
Start
19549680/19692169 (Hg38)
End
19549680/19692169 (Hg38)
Orient
+
Location type
Intronic
Target gene
CSGALNACT1
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-124-3p ; hsa-mir-126-5p ; hsa-mir-16-5p ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-124-5p ; hsa-mir-616-3p ; hsa-mir-627-3p ; hsa-mir-3925-3p ; hsa-mir-1825 ; hsa-mir-153-5p ; hsa-mir-1250-3p ; hsa-mir-4255 ; hsa-mir-199a-5p ; hsa-mir-199b-5p ; hsa-mir-765 ; hsa-mir-3663-3p ; hsa-mir-4786-3p ; hsa-mir-665 ; hsa-mir-4459 ; hsa-mir-3620-3p ; hsa-mir-6871-3p ; hsa-mir-10b-5p ; hsa-mir-10a-5p
Nearest miRNA
hsa-mir-124-1/Upstream/2010512; hsa-mir-10400/Downstream/2552797;
Nearest TSS
ENST00000518652/Upstream/8929; ENST00000520985/Downstream/65048;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/89543, chr8-CpG: 121/Downstream/64451
Nearby gene
CSGALNACT1(No orient, 9586)
Upstream sequence
ggaaaactgccttggaaaaccatcagatatcctgagaactcactcactatcacgagaacagcatggaggaaccgcccccatgatccaatcacctcccacc
Downstream sequence
tggtccctccctcgacacacaggaattatagggattacaattagagatgagatttaggtggggacacagccaaaccatatcacctactaaaacaaaaatg
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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