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TVIS30005696
Basic Information
VIS ID
TVIS30005696
Fusion event
HIV-PDCD4 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
chr10
Cytoband
q25.2
Reference genome
GRCh37/hg19
Start
112643941/110884183 (Hg38)
End
112643941/110884183 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10D
;
FRA10A
;
FRA10B
Target gene
PDCD4
miRNAs that regulate target gene
hsa-mir-16-5p
;
hsa-mir-15a-5p
;
hsa-mir-1-3p
;
hsa-mir-21-5p
;
hsa-mir-200a-3p
;
hsa-mir-183-5p
;
hsa-mir-499a-5p
;
hsa-mir-182-5p
;
hsa-mir-335-5p
;
hsa-mir-155-5p
;
hsa-mir-196a-5p
;
hsa-mir-197-3p
;
hsa-mir-10b-5p
;
hsa-mir-548j-3p
;
hsa-mir-548x-3p
;
hsa-mir-548ae-3p
;
hsa-mir-548ah-3p
;
hsa-mir-548aj-3p
;
hsa-mir-548am-3p
;
hsa-mir-548aq-3p
;
hsa-mir-5582-3p
;
hsa-mir-548c-3p
;
hsa-mir-513b-3p
;
hsa-mir-3163
;
hsa-mir-3662
;
hsa-mir-6826-3p
;
hsa-mir-590-5p
;
hsa-mir-548m
;
hsa-mir-3653-3p
;
hsa-mir-3658
;
hsa-mir-4436b-5p
;
hsa-mir-5197-3p
;
hsa-mir-5579-3p
;
hsa-mir-6509-3p
;
hsa-mir-15b-5p
;
hsa-mir-195-5p
;
hsa-mir-320a
;
hsa-mir-4804-3p
;
hsa-mir-655-5p
;
hsa-mir-5003-3p
;
hsa-mir-524-5p
;
hsa-mir-520d-5p
;
hsa-mir-6756-3p
;
hsa-mir-3127-3p
;
hsa-mir-329-5p
;
hsa-mir-4748
;
hsa-mir-4464
;
hsa-mir-340-5p
;
hsa-mir-218-5p
;
hsa-mir-4720-3p
;
hsa-mir-5089-5p
;
hsa-mir-4279
;
hsa-mir-6778-3p
;
hsa-mir-6506-5p
;
hsa-mir-619-5p
;
hsa-mir-1976
;
hsa-mir-3653-5p
;
hsa-mir-150-5p
;
hsa-mir-6747-3p
;
hsa-mir-6727-3p
;
hsa-mir-4722-3p
;
hsa-mir-6814-5p
;
hsa-mir-5697
;
hsa-mir-5571-5p
;
hsa-mir-562
;
hsa-mir-93-3p
;
hsa-mir-202-3p
;
hsa-mir-21-3p
;
hsa-mir-181b-5p
;
hsa-mir-93-5p
;
hsa-mir-208a-3p
;
hsa-mir-744-3p
;
hsa-mir-330-3p
;
hsa-mir-129-1-3p
;
hsa-mir-129-2-3p
;
hsa-mir-216a-5p
;
hsa-mir-4763-5p
;
hsa-mir-938
Nearest miRNA
hsa-mir-107/Upstream/6615778; hsa-mir-202/Downstream/13907;
Nearest TSS
ENST00000439456/Upstream/3864;
ENST00000489049/Downstream/588;
Nearest CpG islands
None/Target,
chr10-CpG: 68/Upstream/11465
,
chr10-CpG: 131/Downstream/34366
Nearest cancer related gene
PDCD4
(TSG, No orient, 0)
Upstream sequence
tttcagaagtaattcataagttttaaattgcatgccattctgagtagtgtgatgagatctcctgctgtccagcttcatccacctcatcctgcccaggatg
Downstream sequence
tgagccattccgttgtccagcgtgtatccgcaatgtatacactactcgtgcattcgtcacatggtagctgtctaggttatcggattgagaaaacagtatt
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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