Variant report

Variant	rs6458568
Chromosome Location	chr6:12961672-12961673
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs11755825	0.81[JPT][hapmap]
rs11757634	1.00[CEU][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11961007	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11963982	0.96[CEU][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13207062	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1937768	0.81[JPT][hapmap]
rs4236091	1.00[CEU][hapmap];0.90[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4380742	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4711899	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4715016	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4715023	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4715032	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4715043	0.96[CEU][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6899754	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6900619	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6901563	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6906890	0.81[JPT][hapmap]
rs6916268	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6920970	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7739717	1.00[CEU][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7743219	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7760857	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7762881	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7770277	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7774403	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7774775	1.00[CEU][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9296556	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296580	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9463337	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9463363	0.86[AMR][1000 genomes]
rs9473113	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9473120	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9473156	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9473188	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9473198	0.86[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3521000	chr6:12561306-13128519	Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv3521001	chr6:12561306-13128519	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv830588	chr6:12793530-12972493	Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv817350	chr6:12922859-13137655	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:12958200-12962200	Weak transcription	Spleen	Spleen
2	chr6:12958200-12963000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:12958400-12962800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr6:12958600-12963200	Weak transcription	Primary B cells from cord blood	blood
5	chr6:12958800-12962400	Weak transcription	Pancreas	Pancrea
6	chr6:12958800-12962800	Weak transcription	NHEK	skin
7	chr6:12958800-12963200	Weak transcription	NHLF	lung
8	chr6:12959000-12962000	Weak transcription	Monocytes-CD14+_RO01746	blood
9	chr6:12959000-12962800	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr6:12959000-12962800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr6:12959000-12963000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr6:12959000-12963000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr6:12959000-12963000	Weak transcription	Fetal Stomach	stomach
14	chr6:12959000-12963000	Weak transcription	HSMMtube	muscle
15	chr6:12959000-12963000	Weak transcription	NH-A	brain
16	chr6:12959000-12963000	Weak transcription	NHDF-Ad	bronchial
17	chr6:12959200-12962000	Weak transcription	Primary hematopoietic stem cells	blood
18	chr6:12959200-12962000	Weak transcription	Right Ventricle	heart
19	chr6:12959200-12962200	Weak transcription	Primary monocytes fromperipheralblood	blood
20	chr6:12959200-12962200	Weak transcription	Right Atrium	heart
21	chr6:12959200-12962400	Weak transcription	HSMM	muscle
22	chr6:12959200-12963000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr6:12959200-12963400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr6:12959200-12964000	Enhancers	Brain Cingulate Gyrus	brain
25	chr6:12959200-12968000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr6:12959400-12962000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr6:12959400-12962000	Weak transcription	Lung	lung
28	chr6:12960000-12962200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr6:12960200-12962400	Weak transcription	Brain Hippocampus Middle	brain
30	chr6:12960200-12962400	Enhancers	Fetal Heart	heart
31	chr6:12960200-12962800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr6:12960400-12962400	Enhancers	Stomach Smooth Muscle	stomach
33	chr6:12960600-12963800	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr6:12960800-12962600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr6:12960800-12962600	Weak transcription	Colon Smooth Muscle	Colon
36	chr6:12960800-12962600	Enhancers	HUVEC	blood vessel
37	chr6:12961000-12961800	Weak transcription	Brain Angular Gyrus	brain
38	chr6:12961000-12962200	Enhancers	Primary hematopoietic stem cells short term culture	blood
39	chr6:12961000-12963400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr6:12961000-12968400	Weak transcription	Brain Substantia Nigra	brain
41	chr6:12961400-12961800	Weak transcription	Left Ventricle	heart
42	chr6:12961400-12962000	Weak transcription	Aorta	Aorta
43	chr6:12961600-12962400	Weak transcription	Brain Anterior Caudate	brain

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