Variant report

Variant	rs11680632
Chromosome Location	chr2:178524042-178524043
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10497493	0.83[YRI][hapmap];0.99[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10497497	1.00[CHB][hapmap]
rs11679730	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs12618150	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap]
rs12619453	0.84[ASN][1000 genomes]
rs12620285	1.00[CHB][hapmap]
rs13000926	0.96[YRI][hapmap];0.99[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13017234	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs13017429	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap]
rs13025391	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs13025904	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs13026012	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[AFR][1000 genomes]
rs13028757	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs13431105	1.00[CHB][hapmap]
rs1358326	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap]
rs1358327	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap]
rs1405716	0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1446839	1.00[CHB][hapmap]
rs1527399	0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1527400	0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1527402	0.81[CEU][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1527410	0.83[CEU][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1544001	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs1544003	0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1547580	0.81[CEU][hapmap];0.93[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1547581	0.83[CEU][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1547582	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16865535	0.84[ASN][1000 genomes]
rs1997206	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap]
rs1997207	0.88[CEU][hapmap];1.00[CHB][hapmap]
rs1997208	0.96[YRI][hapmap];0.99[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1997209	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2222712	0.88[CEU][hapmap];1.00[CHB][hapmap]
rs2365620	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs2695315	1.00[CHB][hapmap]
rs2886422	0.96[YRI][hapmap];0.99[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3770003	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4110134	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs4341975	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs4893970	1.00[CHB][hapmap]
rs4893974	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4893975	0.93[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4893976	0.83[CEU][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4893977	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5025340	0.90[CEU][hapmap];1.00[CHB][hapmap]
rs6433683	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6433685	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs6433687	1.00[CEU][hapmap];0.93[YRI][hapmap]
rs6433688	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs6721360	0.90[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap]
rs6723031	1.00[CHB][hapmap]
rs6723063	1.00[CHB][hapmap]
rs6755382	0.81[AFR][1000 genomes]
rs6756918	1.00[CHB][hapmap]
rs7422544	0.96[YRI][hapmap];0.99[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7560080	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap]
rs7560514	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap]
rs7560737	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap]
rs7573345	1.00[CHB][hapmap]
rs7577174	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7578901	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs7586934	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap]
rs7591796	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7591897	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7593744	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7593753	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7594290	0.81[ASN][1000 genomes]
rs7597640	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap]
rs941271	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap]
rs941276	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999086	chr2:178262348-178773585	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv536055	chr2:178262348-178773585	Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv583688	chr2:178427640-178540293	Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 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	chr2:178517000-178524400	Weak transcription	Fetal Kidney	kidney
2	chr2:178517200-178530800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr2:178517400-178524200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr2:178518600-178524400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr2:178519000-178524400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr2:178523000-178524200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr2:178524000-178524600	Enhancers	H1 Cell Line	embryonic stem cell
8	chr2:178524000-178525000	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr2:178524000-178525000	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
10	chr2:178524000-178525200	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
11	chr2:178524000-178525800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links