Variant report

Variant	rs12062387
Chromosome Location	chr1:149868334-149868335
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	chr1:149866903..149869458-chr1:150127857..150129555,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000023902	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1044808	1.00[EUR][1000 genomes]
rs1046332	0.90[EUR][1000 genomes]
rs10494261	0.84[EUR][1000 genomes]
rs10494363	0.84[EUR][1000 genomes]
rs11205307	0.84[EUR][1000 genomes]
rs11205308	0.84[EUR][1000 genomes]
rs12077623	0.84[EUR][1000 genomes]
rs12078573	0.87[EUR][1000 genomes]
rs12081082	0.84[EUR][1000 genomes]
rs1349532	1.00[EUR][1000 genomes]
rs1376675	1.00[EUR][1000 genomes]
rs1376676	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1451641	1.00[EUR][1000 genomes]
rs15931	0.99[EUR][1000 genomes]
rs16835135	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16836630	0.89[EUR][1000 genomes]
rs17643644	0.87[EUR][1000 genomes]
rs1804775	0.87[EUR][1000 genomes]
rs2044891	0.84[EUR][1000 genomes]
rs2198194	0.84[EUR][1000 genomes]
rs35230744	0.84[EUR][1000 genomes]
rs41264630	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs41265185	0.84[EUR][1000 genomes]
rs41302101	0.84[EUR][1000 genomes]
rs45548131	0.89[EUR][1000 genomes]
rs55633017	1.00[EUR][1000 genomes]
rs55664407	1.00[EUR][1000 genomes]
rs55705001	0.89[EUR][1000 genomes]
rs55885412	0.99[EUR][1000 genomes]
rs56119131	1.00[EUR][1000 genomes]
rs56139516	1.00[EUR][1000 genomes]
rs56229803	1.00[EUR][1000 genomes]
rs56265028	0.91[EUR][1000 genomes]
rs61355654	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6587680	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs68002561	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs68144650	0.89[EUR][1000 genomes]
rs72692803	0.90[EUR][1000 genomes]
rs72692804	0.89[EUR][1000 genomes]
rs72692805	0.89[EUR][1000 genomes]
rs72692807	0.89[EUR][1000 genomes]
rs72692808	0.89[EUR][1000 genomes]
rs72692810	0.89[EUR][1000 genomes]
rs72692811	0.89[EUR][1000 genomes]
rs72692812	0.89[EUR][1000 genomes]
rs72692813	0.87[EUR][1000 genomes]
rs72692814	0.87[EUR][1000 genomes]
rs72692816	0.87[EUR][1000 genomes]
rs72692818	0.87[EUR][1000 genomes]
rs72692819	0.87[EUR][1000 genomes]
rs72708145	0.90[EUR][1000 genomes]
rs72708148	0.99[EUR][1000 genomes]
rs72708149	0.99[EUR][1000 genomes]
rs72708150	0.99[EUR][1000 genomes]
rs72708151	1.00[EUR][1000 genomes]
rs72708152	1.00[EUR][1000 genomes]
rs72708153	1.00[EUR][1000 genomes]
rs72708157	1.00[EUR][1000 genomes]
rs72708158	0.97[EUR][1000 genomes]
rs72708162	0.91[EUR][1000 genomes]
rs73008195	0.84[EUR][1000 genomes]
rs7524797	0.97[EUR][1000 genomes]
rs7544531	0.90[AMR][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	nsv432820	chr1:148921404-149920927	Bivalent/Poised TSS Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Weak transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	784 gene(s)	inside rSNPs	diseases
2	nsv831525	chr1:149701537-149878033	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	424 gene(s)	inside rSNPs	diseases
3	nsv831537	chr1:149833357-150064655	Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	431 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:149860800-149870600	Weak transcription	HepG2	liver
2	chr1:149860800-149871200	Weak transcription	Right Atrium	heart
3	chr1:149861000-149871000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr1:149861400-149870800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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