Variant report

Variant	rs12199958
Chromosome Location	chr6:133485459-133485460
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	chr6:133484970..133486703-chr6:133490391..133493056,2	MCF-7	breast:

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10457600	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10872402	0.83[ASN][1000 genomes]
rs11154715	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12154207	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12190728	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12191026	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12192002	0.84[EUR][1000 genomes]
rs12192605	0.84[EUR][1000 genomes]
rs12193038	0.85[ASN][1000 genomes]
rs12193158	0.85[ASN][1000 genomes]
rs12196069	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12196492	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12199138	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12199555	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12199738	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12200393	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12202540	0.85[ASN][1000 genomes]
rs12205139	0.80[EUR][1000 genomes]
rs12206291	0.92[EUR][1000 genomes]
rs12206438	0.85[ASN][1000 genomes]
rs12210216	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12211999	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12213350	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12213452	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12213690	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12215217	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1856291	0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4273707	0.81[EUR][1000 genomes]
rs4273708	0.81[EUR][1000 genomes]
rs57161827	0.84[EUR][1000 genomes]
rs59793266	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62428563	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62428596	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62428597	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62430588	0.81[EUR][1000 genomes]
rs62430590	0.81[EUR][1000 genomes]
rs6902225	0.87[EUR][1000 genomes]
rs6913444	0.93[EUR][1000 genomes]
rs6927627	0.81[EUR][1000 genomes]
rs6935070	0.81[EUR][1000 genomes]
rs6935480	0.81[EUR][1000 genomes]
rs6936410	0.81[EUR][1000 genomes]
rs6940959	0.81[EUR][1000 genomes]
rs72557636	0.82[EUR][1000 genomes]
rs7738156	0.81[EUR][1000 genomes]
rs7738592	0.84[EUR][1000 genomes]
rs7746390	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7748926	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7749533	0.83[EUR][1000 genomes]
rs7750218	0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7750279	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7750376	0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7752905	0.83[ASN][1000 genomes]
rs7754486	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7756963	0.94[EUR][1000 genomes]
rs7761372	0.84[EUR][1000 genomes]
rs7763647	0.82[ASN][1000 genomes]
rs7766470	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7767378	0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7767651	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7770031	0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7773069	0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9373038	0.85[ASN][1000 genomes]
rs9375940	0.83[ASN][1000 genomes]
rs9375942	0.83[ASN][1000 genomes]
rs9389052	0.84[ASN][1000 genomes]
rs9399052	0.83[ASN][1000 genomes]
rs9402484	0.83[ASN][1000 genomes]
rs9402485	0.82[ASN][1000 genomes]
rs9402486	0.83[ASN][1000 genomes]
rs9402487	0.85[ASN][1000 genomes]
rs9483529	0.81[EUR][1000 genomes]
rs9483530	0.81[EUR][1000 genomes]
rs9483554	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9483557	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9483560	0.85[ASN][1000 genomes]
rs9493515	0.81[EUR][1000 genomes]
rs9493517	0.81[EUR][1000 genomes]
rs9493518	0.81[EUR][1000 genomes]
rs9493540	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9493544	0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9493554	0.83[ASN][1000 genomes]
rs957183	0.95[EUR][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	nsv428154	chr6:133271975-133522803	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	esv2758080	chr6:133444719-133627364	Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv2759470	chr6:133444719-133627364	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv886677	chr6:133454738-133515602	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133480600-133485600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr6:133485400-133485800	ZNF genes & repeats	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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