Variant report

Variant	rs12189861
Chromosome Location	chr6:24274452-24274453
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:24273970..24276179-chr6:24277278..24279820,2	MCF-7	breast:
2	chr6:24064087..24064968-chr6:24274253..24275166,4	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs12190103	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12190202	0.90[EUR][1000 genomes]
rs12197537	0.90[EUR][1000 genomes]
rs12199068	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12201442	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12205083	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12215082	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1541190	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1591997	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2792682	0.88[ASN][1000 genomes]
rs28993075	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28993077	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28993078	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28993079	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2994542	0.92[ASN][1000 genomes]
rs3789226	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3846827	0.91[ASN][1000 genomes]
rs3846828	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4612153	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6907864	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6923278	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6923473	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72830866	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs807699	0.92[ASN][1000 genomes]
rs807709	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs807724	0.88[ASN][1000 genomes]
rs807726	0.85[ASN][1000 genomes]
rs9295616	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9460976	0.89[EUR][1000 genomes]
rs9460977	0.89[EUR][1000 genomes]
rs9460981	0.86[ASN][1000 genomes]
rs9460983	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9460984	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467076	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs9467078	0.89[EUR][1000 genomes]
rs9467079	0.89[EUR][1000 genomes]
rs9467081	0.89[EUR][1000 genomes]
rs9467090	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029930	chr6:23481989-24289948	Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv427746	chr6:24221299-24305709	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24263000-24283000	Weak transcription	Fetal Intestine Large	intestine
2	chr6:24270200-24274800	Strong transcription	HepG2	liver
3	chr6:24270400-24283800	Weak transcription	Pancreas	Pancrea
4	chr6:24271200-24283400	Weak transcription	Fetal Intestine Small	intestine
5	chr6:24273600-24274600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr6:24273800-24274600	Enhancers	Fetal Kidney	kidney
7	chr6:24273800-24274800	Enhancers	Brain Germinal Matrix	brain
8	chr6:24273800-24274800	Enhancers	Colon Smooth Muscle	Colon
9	chr6:24274200-24274800	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr6:24274200-24283800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr6:24274400-24274800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr6:24274400-24274800	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr6:24274400-24274800	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr6:24274400-24274800	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr6:24274400-24274800	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr6:24274400-24274800	Enhancers	Cortex derived primary cultured neurospheres	brain

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