Variant report

Variant	rs12874827
Chromosome Location	chr13:50900736-50900737
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs11842790	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12853498	1.00[CEU][hapmap];0.85[AFR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12855386	1.00[ASN][1000 genomes]
rs12867018	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12871645	1.00[CEU][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12874278	1.00[JPT][hapmap];0.82[YRI][hapmap];1.00[ASN][1000 genomes]
rs12876227	1.00[ASN][1000 genomes]
rs17074093	1.00[CEU][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17074141	0.85[AFR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17074143	0.85[AFR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17074145	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17363026	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17363566	1.00[JPT][hapmap];0.82[YRI][hapmap];1.00[ASN][1000 genomes]
rs2066664	1.00[ASN][1000 genomes]
rs2066673	1.00[ASN][1000 genomes]
rs2066679	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3095158	0.87[ASN][1000 genomes]
rs3095160	0.87[ASN][1000 genomes]
rs3095164	0.87[ASN][1000 genomes]
rs3095165	0.87[ASN][1000 genomes]
rs3116594	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs3116595	0.87[ASN][1000 genomes]
rs3118648	0.87[ASN][1000 genomes]
rs3118649	0.87[ASN][1000 genomes]
rs3118650	0.87[ASN][1000 genomes]
rs34042295	0.80[AFR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34357487	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34374535	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34453016	1.00[ASN][1000 genomes]
rs34556868	1.00[ASN][1000 genomes]
rs34700115	0.80[AFR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34712361	0.80[AFR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34972893	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35299189	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35383320	0.80[AFR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35413012	1.00[ASN][1000 genomes]
rs35542898	1.00[ASN][1000 genomes]
rs35650342	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35902227	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35980102	1.00[ASN][1000 genomes]
rs67217502	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67964536	0.80[AFR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs706603	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71428294	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71436217	1.00[ASN][1000 genomes]
rs71436218	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71436219	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71436220	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71436222	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73498033	0.83[AFR][1000 genomes]
rs73498084	0.83[AFR][1000 genomes]
rs7986582	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7990202	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs806315	1.00[ASN][1000 genomes]
rs806318	1.00[JPT][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1035151	chr13:50513535-51167850	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1254 gene(s)	inside rSNPs	diseases
2	esv2753964	chr13:50545399-51421199	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1256 gene(s)	inside rSNPs	diseases
3	esv2753492	chr13:50550081-51461720	Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1256 gene(s)	inside rSNPs	diseases
4	esv2752608	chr13:50550099-51054499	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1249 gene(s)	inside rSNPs	diseases
5	nsv900076	chr13:50710579-50912578	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv561632	chr13:50874346-50912578	Flanking Active TSS Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:50896000-50907800	Weak transcription	HepG2	liver
2	chr13:50898400-50900800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr13:50898400-50901000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr13:50898400-50901000	Weak transcription	NH-A	brain
5	chr13:50900200-50901400	Enhancers	Fetal Thymus	thymus
6	chr13:50900200-50902000	Enhancers	Dnd41	blood
7	chr13:50900600-50900800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr13:50900600-50901000	Enhancers	Pancreas	Pancrea
9	chr13:50900600-50901400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr13:50900600-50901400	Enhancers	NHDF-Ad	bronchial
11	chr13:50900600-50901400	Enhancers	Osteobl	bone
12	chr13:50900600-50901600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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