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VISDB
Viral Integration Site DataBase
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TVIS30009021
Basic Information
VIS ID
TVIS30009021
Fusion event
HIV-PRRC2A 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
chr6
Cytoband
p21.33
Reference genome
GRCh37/hg19
Start
31592363/31624586 (Hg38)
End
31592363/31624586 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
PRRC2A
miRNAs that regulate target gene
hsa-let-7b-5p
;
hsa-mir-1303
;
hsa-mir-1180-3p
;
hsa-mir-760
;
hsa-mir-877-3p
;
hsa-mir-744-5p
;
hsa-mir-423-5p
;
hsa-mir-330-5p
;
hsa-mir-296-3p
;
hsa-mir-93-3p
;
hsa-mir-615-3p
;
hsa-mir-92b-3p
;
hsa-mir-18a-3p
;
hsa-mir-193b-3p
;
hsa-mir-484
;
hsa-mir-331-3p
;
hsa-mir-222-3p
;
hsa-mir-106a-5p
;
hsa-mir-25-3p
;
hsa-let-7e-5p
;
hsa-let-7c-5p
;
hsa-mir-218-5p
;
hsa-mir-4316
;
hsa-mir-7111-5p
;
hsa-mir-6870-5p
;
hsa-mir-5698
;
hsa-mir-4723-5p
;
hsa-mir-6825-5p
;
hsa-mir-3144-5p
;
hsa-mir-6780b-5p
;
hsa-mir-4725-3p
;
hsa-mir-4271
;
hsa-mir-7106-5p
;
hsa-mir-5196-5p
;
hsa-mir-4747-5p
;
hsa-mir-874-5p
;
hsa-mir-765
;
hsa-mir-3202
;
hsa-mir-6089
;
hsa-mir-5008-5p
;
hsa-mir-3179
;
hsa-mir-6794-5p
;
hsa-mir-4716-3p
;
hsa-mir-6783-5p
;
hsa-mir-4779
;
hsa-mir-6753-5p
;
hsa-mir-556-3p
;
hsa-mir-501-5p
;
hsa-mir-500a-5p
;
hsa-mir-605-5p
Nearest miRNA
hsa-mir-3143/Upstream/269270; hsa-mir-10398/Downstream/9201;
Nearest TSS
ENST00000381078/Upstream/3861;
ENST00000464079/Downstream/316;
Nearest CpG islands
None/Target,
chr6-CpG: 120/Upstream/3339
,
chr6-CpG: 22/Downstream/7156
Upstream sequence
CACAAGCCAGCGTCACCCATGGAGCACATGGAGATGGTGAGTGCAGCACTTAATTGGGGAGCTGTGTCTGGGCACCATGGGATGCATGAACCCTGCACTG
Downstream sequence
TATTTTCAGCCAAGTGACCTTGGTCCTCTTTGGCTAAATCAAGGACCACCCATATTCAGTTTCATGGAGGCACATGAGCAAGTTTAAGTCTCAGTCTTAT
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
Central Memory CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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