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TVIS30008913
Basic Information
VIS ID
TVIS30008913
Fusion event
HIV-CSNK1A1 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
chr5
Cytoband
q32
Reference genome
GRCh37/hg19
Start
148893857/149514294 (Hg38)
End
148893857/149514294 (Hg38)
Orient
-
Location type
Intronic
Target gene
CSNK1A1
miRNAs that regulate target gene
hsa-mir-155-5p
;
hsa-mir-186-5p
;
hsa-mir-21-5p
;
hsa-mir-652-3p
;
hsa-mir-324-3p
;
hsa-mir-548e-5p
;
hsa-mir-6835-3p
;
hsa-mir-4671-3p
;
hsa-mir-519c-3p
;
hsa-mir-519b-3p
;
hsa-mir-519a-3p
;
hsa-mir-5692a
;
hsa-mir-548t-5p
;
hsa-mir-548az-5p
;
hsa-mir-106b-5p
;
hsa-mir-17-5p
;
hsa-mir-106a-5p
;
hsa-mir-20a-5p
;
hsa-mir-20b-5p
;
hsa-mir-519d-3p
;
hsa-mir-526b-3p
;
hsa-mir-93-5p
;
hsa-mir-520c-3p
;
hsa-mir-302a-3p
;
hsa-mir-302b-3p
;
hsa-mir-302c-3p
;
hsa-mir-302d-3p
;
hsa-mir-520e
;
hsa-mir-520d-3p
;
hsa-mir-372-3p
;
hsa-mir-373-3p
;
hsa-mir-520b
;
hsa-mir-302e
;
hsa-mir-520a-3p
;
hsa-mir-153-3p
;
hsa-mir-3187-3p
;
hsa-mir-7159-5p
;
hsa-mir-4529-5p
;
hsa-mir-4709-5p
;
hsa-mir-4272
;
hsa-mir-1244
;
hsa-mir-181d-5p
;
hsa-mir-181a-5p
;
hsa-mir-181b-5p
;
hsa-mir-4262
;
hsa-mir-181c-5p
;
hsa-mir-505-3p
;
hsa-mir-421
;
hsa-mir-199b-3p
;
hsa-mir-199a-3p
;
hsa-mir-3129-5p
;
hsa-mir-3942-3p
;
hsa-mir-205-3p
;
hsa-mir-6809-3p
;
hsa-mir-6833-3p
;
hsa-mir-4768-5p
;
hsa-mir-4753-3p
;
hsa-mir-6873-3p
;
hsa-mir-4465
;
hsa-mir-26b-5p
;
hsa-mir-26a-5p
;
hsa-mir-1297
;
hsa-mir-3160-5p
;
hsa-mir-942-5p
;
hsa-mir-1236-3p
;
hsa-mir-6515-3p
;
hsa-mir-6845-3p
;
hsa-mir-136-5p
;
hsa-mir-3121-5p
;
hsa-mir-376a-5p
;
hsa-mir-4760-5p
;
hsa-mir-8061
Nearest miRNA
hsa-mir-10397/Upstream/83561; hsa-mir-103a-1/Downstream/218531;
Nearest TSS
ENST00000502646/Upstream/1073;
ENST00000505810/Downstream/36005;
Nearest CpG islands
None/Target,
chr5-CpG: 87/Upstream/156248
,
chr5-CpG: 93/Downstream/36392
Nearest cancer related gene
CSNK1A1
(TSG, No orient, 0)
Upstream sequence
ACTAGTGTTTAGAACAAAATAACGTTTAGTGTTATCATGTCTATATGGTACTCAGGGAATAAGGTATTCATTTATAATGTAGCTAATTGTTGTATGTAAT
Downstream sequence
TCAAGTTTACACTCCAGAACTTAAGCCTTTTATAAGTAAATAACTATTTTTATGAAAAAGAAATCCAAAACATATTCATATTTACCTACCATATGAAAAG
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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