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TVIS30001412
Basic Information
VIS ID
TVIS30001412
Fusion event
HIV-SNX27 integration
Validated
Yes
Detection method
QiaQuick PCR and Sequencing
Data source
Curated
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Good
Reported year
2014
PubMed ID
25011556
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr1
Cytoband
q21.3
Reference genome
GRCh37/hg19
Start
151642525/151670049 (Hg38)
End
151643315/151670049 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1F
Target gene
SNX27
miRNAs that regulate target gene
hsa-mir-4999-3p
;
hsa-mir-7977
;
hsa-mir-26b-3p
;
hsa-mir-4267
;
hsa-mir-7160-5p
;
hsa-mir-4722-5p
;
hsa-mir-6884-5p
;
hsa-mir-485-5p
;
hsa-mir-1827
;
hsa-mir-4649-3p
;
hsa-mir-665
;
hsa-mir-4768-3p
;
hsa-mir-4478
;
hsa-mir-4419b
;
hsa-mir-3929
;
hsa-mir-940
;
hsa-mir-6893-5p
;
hsa-mir-6808-5p
;
hsa-mir-887-5p
;
hsa-mir-6780a-5p
;
hsa-mir-6779-5p
;
hsa-mir-3689c
;
hsa-mir-3689b-3p
;
hsa-mir-3689a-3p
;
hsa-mir-30b-3p
;
hsa-mir-1273h-5p
;
hsa-mir-6788-5p
;
hsa-mir-30c-2-3p
;
hsa-mir-30c-1-3p
;
hsa-mir-6799-5p
;
hsa-mir-6883-5p
;
hsa-mir-6785-5p
;
hsa-mir-4728-5p
;
hsa-mir-149-3p
;
hsa-mir-7106-5p
;
hsa-mir-2467-3p
;
hsa-mir-6511a-5p
;
hsa-mir-1910-3p
;
hsa-mir-890
Nearest miRNA
hsa-mir-101-1/Upstream/124158; hsa-mir-1182/Downstream/2019656;
Nearest TSS
ENST00000473358/Upstream/9665;
ENST00000647551/Downstream/5807;
Nearest CpG islands
None/Target,
chr1-CpG: 111/Upstream/57320
,
chr1-CpG: 25/Downstream/51466
Target sequence
ATACCCCACAAGCACAGTCAACCAAAGCAAAAATGGACAAATGGGATCACATTAAGCTAAAAAGCTTCTGCACAGCAAAGGAAACAATCAACAAAGTGAAAAAGCAACTCACAGAATGGGAGAAAATATTTGCAAACTACTCATCTGACAAGGGATTAATAATCAGAATATATAAGGAGCTCAAACAACTCAACAGGAAAAAAAAAGAAATGCACATAGAAACTACAATGAGATATCATCTCACCCTAGTTAAAA
Reference
Wagner, T. A., et al. Proliferation of cells with HIV integrated into cancer genes contributes to persistent infection. Science,2014, 345(6196): 570-573.
Sample Information
×
Sample name
R1
Sample type
PBMC
Gender
Female
CpG Island Information
×
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