Variant report

Variant	rs2968017
Chromosome Location	chr5:58263333-58263334
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10074854	0.93[CEU][hapmap];0.91[EUR][1000 genomes]
rs10461657	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1463816	0.91[EUR][1000 genomes]
rs1498612	0.97[EUR][1000 genomes]
rs1532520	0.94[EUR][1000 genomes]
rs1553114	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs159724	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1846369	0.97[EUR][1000 genomes]
rs1973450	0.95[EUR][1000 genomes]
rs1973451	0.95[EUR][1000 genomes]
rs2927661	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2936190	0.93[CEU][hapmap];0.81[CHB][hapmap];0.85[EUR][1000 genomes]
rs2936192	0.81[AMR][1000 genomes]
rs2936193	1.00[CEU][hapmap];0.81[CHB][hapmap]
rs2936199	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2968006	0.93[CEU][hapmap];1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs2968013	0.93[CEU][hapmap];0.90[CHB][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2968014	0.93[CEU][hapmap];0.91[CHB][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2968015	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2968021	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3805553	0.93[CEU][hapmap];0.91[EUR][1000 genomes]
rs3805554	0.90[EUR][1000 genomes]
rs3805556	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3805557	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs412423	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4321723	0.93[CEU][hapmap];0.88[EUR][1000 genomes]
rs457959	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4621516	0.97[EUR][1000 genomes]
rs4629551	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4699930	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4699931	0.93[CEU][hapmap];1.00[CHB][hapmap];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4700314	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6450496	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs6875727	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs702519	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs702523	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7712725	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs7713069	0.93[CEU][hapmap];0.97[EUR][1000 genomes]
rs7713345	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs7724713	0.93[CEU][hapmap];0.91[EUR][1000 genomes]
rs7737685	1.00[CEU][hapmap];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2830363	chr5:57893949-58555491	Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv830312	chr5:58191579-58382226	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58255200-58270200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr5:58259600-58266800	Weak transcription	HSMM	muscle
3	chr5:58260200-58270200	Weak transcription	HSMMtube	muscle
4	chr5:58261400-58264400	Enhancers	A549	lung
5	chr5:58262000-58268800	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr5:58262400-58269000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr5:58262400-58273400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr5:58262800-58268200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr5:58263200-58263400	Enhancers	Pancreatic Islets	Pancreatic Islet
10	chr5:58263200-58270000	Weak transcription	Small Intestine	intestine
11	chr5:58263200-58271400	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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