Variant report

Variant	rs6034194
Chromosome Location	chr20:15426502-15426503
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1326670	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1468888	0.86[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs2104589	0.86[CHB][hapmap];0.91[JPT][hapmap]
rs2208137	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs380512	0.91[JPT][hapmap];0.83[ASN][1000 genomes]
rs394042	0.81[CHB][hapmap];0.91[JPT][hapmap]
rs426845	0.91[JPT][hapmap];0.83[ASN][1000 genomes]
rs453612	0.86[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs4814370	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs4814371	0.96[CEU][hapmap];0.81[CHB][hapmap];0.90[JPT][hapmap]
rs4814376	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs6034183	0.96[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6034185	0.96[CEU][hapmap];0.81[CHB][hapmap];0.91[JPT][hapmap]
rs6034186	0.96[CEU][hapmap];0.90[JPT][hapmap]
rs6034188	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs6034191	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6043268	0.86[CHB][hapmap];0.91[JPT][hapmap]
rs6043269	0.86[CHB][hapmap];0.91[JPT][hapmap]
rs6043282	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6043283	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6043287	0.81[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap];0.87[YRI][hapmap];0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60443504	0.86[AFR][1000 genomes]
rs6079821	0.86[CHB][hapmap];0.91[JPT][hapmap]
rs6079828	0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6079833	0.94[CHB][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6110606	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs727245	0.86[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs727246	0.96[CEU][hapmap];0.85[CHB][hapmap];0.91[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs727247	0.96[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs927920	0.96[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs932822	0.86[CHB][hapmap];0.91[JPT][hapmap]

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	nsv1062252	chr20:14964258-15547739	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv544206	chr20:14964258-15547739	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv869328	chr20:15325423-16213898	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv833927	chr20:15362602-15520185	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:15421200-15426600	Weak transcription	Fetal Intestine Small	intestine
2	chr20:15421400-15427000	Weak transcription	Stomach Smooth Muscle	stomach
3	chr20:15421800-15426800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr20:15425800-15426600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr20:15425800-15426600	Enhancers	Fetal Muscle Leg	muscle
6	chr20:15425800-15426600	Enhancers	Fetal Stomach	stomach
7	chr20:15426200-15426600	Enhancers	Aorta	Aorta
8	chr20:15426200-15427000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr20:15426200-15427600	Weak transcription	Fetal Kidney	kidney
10	chr20:15426200-15427800	Enhancers	Small Intestine	intestine
11	chr20:15426200-15428200	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr20:15426200-15428200	Enhancers	HMEC	breast
13	chr20:15426200-15428600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr20:15426400-15426600	Enhancers	Placenta	Placenta
15	chr20:15426400-15426600	Enhancers	Ovary	ovary
16	chr20:15426400-15427200	Enhancers	Adipose Nuclei	Adipose
17	chr20:15426400-15427600	Enhancers	Colon Smooth Muscle	Colon
18	chr20:15426400-15427800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr20:15426400-15427800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr20:15426400-15427800	Enhancers	Fetal Intestine Large	intestine
21	chr20:15426400-15428600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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