Variant report

Variant	rs6690543
Chromosome Location	chr1:224275527-224275528
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:224275496..224277089-chr1:224283466..224285697,2	MCF-7	breast:

Extended variants
information (count: 91 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs10737430	1.00[ASN][1000 genomes]
rs10737435	1.00[ASN][1000 genomes]
rs10737437	1.00[ASN][1000 genomes]
rs10753448	1.00[ASN][1000 genomes]
rs10753453	1.00[ASN][1000 genomes]
rs10799483	1.00[ASN][1000 genomes]
rs10799486	1.00[ASN][1000 genomes]
rs10916326	1.00[ASN][1000 genomes]
rs10916388	1.00[ASN][1000 genomes]
rs11804140	1.00[ASN][1000 genomes]
rs13313058	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1586888	1.00[ASN][1000 genomes]
rs1602706	1.00[ASN][1000 genomes]
rs1891738	1.00[ASN][1000 genomes]
rs1891739	1.00[ASN][1000 genomes]
rs2035897	1.00[ASN][1000 genomes]
rs2048994	1.00[ASN][1000 genomes]
rs2172359	1.00[ASN][1000 genomes]
rs2404844	1.00[ASN][1000 genomes]
rs2404845	1.00[ASN][1000 genomes]
rs2404846	1.00[ASN][1000 genomes]
rs2404847	1.00[ASN][1000 genomes]
rs2896986	1.00[ASN][1000 genomes]
rs4353057	1.00[ASN][1000 genomes]
rs4653565	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4653955	1.00[ASN][1000 genomes]
rs4653956	1.00[ASN][1000 genomes]
rs56718298	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56887412	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57138220	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57746928	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57823919	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58090997	1.00[ASN][1000 genomes]
rs59018039	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59368039	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59518883	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59819476	1.00[ASN][1000 genomes]
rs60013765	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60381264	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60432349	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60643079	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60972853	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60980395	1.00[EUR][1000 genomes]
rs61074366	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61144016	1.00[ASN][1000 genomes]
rs61347348	1.00[ASN][1000 genomes]
rs61495337	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6426108	1.00[ASN][1000 genomes]
rs6426112	1.00[ASN][1000 genomes]
rs6426162	1.00[ASN][1000 genomes]
rs6659249	1.00[ASN][1000 genomes]
rs6663997	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6668856	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6668862	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6670475	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6670483	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6670591	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6671784	1.00[ASN][1000 genomes]
rs6679683	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6687331	1.00[ASN][1000 genomes]
rs6689914	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6689922	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6690358	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6702019	1.00[ASN][1000 genomes]
rs6704386	1.00[ASN][1000 genomes]
rs73120501	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73122403	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73122404	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73122411	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73122413	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73122436	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73122438	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73122441	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73122446	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73124453	1.00[ASN][1000 genomes]
rs73126416	1.00[ASN][1000 genomes]
rs73128404	1.00[EUR][1000 genomes]
rs73128409	1.00[EUR][1000 genomes]
rs7526301	1.00[ASN][1000 genomes]
rs7532315	1.00[EUR][1000 genomes]
rs7535007	1.00[ASN][1000 genomes]
rs7537121	1.00[ASN][1000 genomes]
rs7541407	1.00[EUR][1000 genomes]
rs908796	1.00[ASN][1000 genomes]
rs937155	1.00[ASN][1000 genomes]
rs969008	1.00[ASN][1000 genomes]
rs969009	1.00[ASN][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	esv2757772	chr1:223935220-224363163	Genic enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	esv2759000	chr1:223935220-224363163	Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
3	nsv427941	chr1:224085052-224363163	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv832692	chr1:224206536-224407717	Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:224274000-224277600	Enhancers	Rectal Mucosa Donor 31	rectum
2	chr1:224274800-224275600	Enhancers	Duodenum Mucosa	Duodenum
3	chr1:224275000-224275800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr1:224275000-224276400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr1:224275200-224275600	Enhancers	Fetal Lung	lung
6	chr1:224275400-224275600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr1:224275400-224277600	Weak transcription	HUVEC	blood vessel
8	chr1:224275400-224282600	Weak transcription	Stomach Mucosa	stomach

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