Variant report

Variant	rs12359678
Chromosome Location	chr10:90878645-90878646
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10509564	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10887906	0.80[EUR][1000 genomes]
rs10887913	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11202933	1.00[ASN][1000 genomes]
rs11202944	1.00[ASN][1000 genomes]
rs11202956	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11202968	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11202969	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11202971	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11202973	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11202974	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11202978	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11202982	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11202984	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11202986	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11202987	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11202990	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11202991	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11202992	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12249543	1.00[ASN][1000 genomes]
rs12354466	1.00[ASN][1000 genomes]
rs12355223	1.00[ASN][1000 genomes]
rs12359686	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12360110	1.00[ASN][1000 genomes]
rs17378555	0.94[CEU][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17378695	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17380509	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17449991	1.00[ASN][1000 genomes]
rs17450261	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17450388	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17463822	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17464831	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17464997	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17465248	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1937324	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1937340	1.00[ASN][1000 genomes]
rs2154249	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2154250	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28461567	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs28533190	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28562823	1.00[ASN][1000 genomes]
rs2863221	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2902448	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67116800	1.00[ASN][1000 genomes]
rs67162474	1.00[ASN][1000 genomes]
rs68099265	1.00[ASN][1000 genomes]
rs7073449	0.86[EUR][1000 genomes]
rs7094057	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72810915	1.00[ASN][1000 genomes]
rs72810935	1.00[ASN][1000 genomes]
rs72810957	1.00[ASN][1000 genomes]
rs72810964	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72810969	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72810981	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72810994	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72812827	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72812830	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72812831	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72812833	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72812834	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72812845	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72812848	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72812849	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72812851	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72812855	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72812859	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72812860	1.00[ASN][1000 genomes]
rs73355387	1.00[ASN][1000 genomes]
rs73365626	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv467416	chr10:90815975-90889997	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
4	nsv551842	chr10:90815975-90889997	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
5	nsv831944	chr10:90822654-90967018	Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
6	esv2758235	chr10:90835064-91017486	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	esv2759775	chr10:90835064-91017486	Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv895881	chr10:90842431-90940003	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv1041964	chr10:90861380-91378356	Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90874600-90879400	Weak transcription	Adipose Nuclei	Adipose
2	chr10:90875200-90878800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr10:90875200-90878800	Enhancers	HSMM	muscle
4	chr10:90875400-90878800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr10:90875400-90878800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr10:90875600-90878800	Enhancers	HUVEC	blood vessel
7	chr10:90876200-90883200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr10:90876600-90882200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr10:90878000-90878800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr10:90878200-90878800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr10:90878400-90879400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr10:90878400-90880600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr10:90878400-90889600	Weak transcription	NHLF	lung
14	chr10:90878600-90878800	Enhancers	NHEK	skin
15	chr10:90878600-90879600	Weak transcription	HSMMtube	muscle
16	chr10:90878600-90880400	Weak transcription	NHDF-Ad	bronchial
17	chr10:90878600-90880600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr10:90878600-90880600	Weak transcription	Osteobl	bone
19	chr10:90878600-90888000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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