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TVIS30003178
Basic Information
VIS ID
TVIS30003178
Fusion event
HIV-PTPN4 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
q14.2
Reference genome
GRCh37/hg19
Start
120665457/119907881 (Hg38)
End
120665457/119907881 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
PTPN4
miRNAs that regulate target gene
hsa-mir-130b-3p
;
hsa-mir-148a-3p
;
hsa-mir-93-5p
;
hsa-mir-19b-3p
;
hsa-mir-20a-5p
;
hsa-mir-106b-5p
;
hsa-mir-1305
;
hsa-mir-607
;
hsa-mir-4670-3p
;
hsa-mir-4709-5p
;
hsa-mir-520h
;
hsa-mir-3973
;
hsa-mir-520g-3p
;
hsa-mir-512-3p
;
hsa-mir-519c-3p
;
hsa-mir-519b-3p
;
hsa-mir-519a-3p
;
hsa-mir-4803
;
hsa-mir-4796-3p
;
hsa-mir-548ah-5p
;
hsa-mir-3609
;
hsa-mir-142-5p
;
hsa-mir-5590-3p
;
hsa-mir-526b-3p
;
hsa-mir-519d-3p
;
hsa-mir-20b-5p
;
hsa-mir-17-5p
;
hsa-mir-106a-5p
;
hsa-mir-3666
;
hsa-mir-4295
;
hsa-mir-454-3p
;
hsa-mir-130a-3p
;
hsa-mir-301a-3p
;
hsa-mir-301b-3p
;
hsa-mir-8061
;
hsa-mir-4760-5p
;
hsa-mir-489-3p
;
hsa-mir-3144-3p
;
hsa-mir-376a-5p
;
hsa-mir-4766-5p
;
hsa-mir-2054
;
hsa-mir-627-3p
;
hsa-mir-429
;
hsa-mir-200c-3p
;
hsa-mir-200b-3p
;
hsa-mir-8084
;
hsa-mir-5089-5p
;
hsa-mir-7151-3p
;
hsa-mir-5095
;
hsa-mir-5589-5p
;
hsa-mir-4731-5p
;
hsa-mir-6778-3p
;
hsa-mir-4707-3p
;
hsa-mir-6506-5p
;
hsa-mir-619-5p
;
hsa-mir-18a-3p
;
hsa-mir-324-3p
;
hsa-mir-1913
;
hsa-mir-150-5p
;
hsa-mir-186-3p
;
hsa-mir-6504-3p
;
hsa-mir-4438
;
hsa-mir-4698
Nearest miRNA
hsa-mir-1285-2/Upstream/6186513; hsa-mir-10b/Downstream/7515656;
Nearest TSS
ENST00000437798/Upstream/25378;
ENST00000488896/Downstream/24399;
Nearest CpG islands
None/Target,
chr2-CpG: 135/Upstream/147447
,
chr2-CpG: 102/Downstream/104940
Upstream sequence
aacatagaaataaatccacgtatttacagccaactgaattttgacaaaggcacctagaacatagagtagggaacagacacccttttccataaatggtact
Downstream sequence
gagaaaactgggtatctattgcagaagaatggaaccagacccttatctcagtatataaaaaatcagctccaaatggattagagagttacacgtaagacct
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Sample Information
×
Sample name
Active CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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