Variant report

Variant	rs9296512
Chromosome Location	chr6:12894904-12894905
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:12637973..12638929-chr6:12893724..12895010,9	MCF-7	breast:
2	chr6:12637589..12639398-chr6:12893710..12895346,24	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1014342	0.92[CEU][hapmap]
rs12526453	0.88[CEU][hapmap]
rs12530250	0.87[EUR][1000 genomes]
rs13197912	0.88[EUR][1000 genomes]
rs13208248	0.81[EUR][1000 genomes]
rs1332844	0.82[ASW][hapmap];1.00[CEU][hapmap];0.97[GIH][hapmap];0.86[JPT][hapmap];0.83[YRI][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1953088	0.92[CEU][hapmap]
rs2327620	0.97[EUR][1000 genomes]
rs2327621	0.92[CEU][hapmap]
rs2876302	0.89[EUR][1000 genomes]
rs2876303	0.91[CEU][hapmap];0.91[GIH][hapmap];0.87[EUR][1000 genomes]
rs4711863	0.92[CEU][hapmap]
rs4714955	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs4714990	0.92[CEU][hapmap];0.86[GIH][hapmap]
rs62389955	0.89[EUR][1000 genomes]
rs6458545	0.92[CEU][hapmap]
rs6902050	0.82[CHD][hapmap]
rs6911226	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6915983	0.96[EUR][1000 genomes]
rs6925904	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7454157	1.00[CEU][hapmap];0.83[CHD][hapmap];0.94[GIH][hapmap];0.97[EUR][1000 genomes]
rs7739181	0.92[CEU][hapmap]
rs7750679	0.94[ASW][hapmap];1.00[CEU][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];0.81[LWK][hapmap];0.94[MKK][hapmap];0.93[YRI][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7751826	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7760016	1.00[CHB][hapmap];0.97[EUR][1000 genomes]
rs7760527	0.97[EUR][1000 genomes]
rs8180558	0.92[CEU][hapmap]
rs9369640	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9381494	0.94[EUR][1000 genomes]
rs9381500	0.92[CEU][hapmap]
rs9395214	1.00[CEU][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];0.98[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	esv3521000	chr6:12561306-13128519	Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv3521001	chr6:12561306-13128519	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv830587	chr6:12769661-12939875	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv830588	chr6:12793530-12972493	Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:12885600-12908800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:12893600-12895800	Weak transcription	Osteobl	bone
3	chr6:12893800-12896600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr6:12894000-12895000	Enhancers	Duodenum Mucosa	Duodenum
5	chr6:12894000-12908800	Weak transcription	Fetal Brain Female	brain
6	chr6:12894200-12895000	Enhancers	Brain Substantia Nigra	brain
7	chr6:12894200-12895800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr6:12894200-12896200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr6:12894200-12896200	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr6:12894200-12896200	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr6:12894200-12896200	Weak transcription	Fetal Lung	lung
12	chr6:12894200-12897400	Weak transcription	Primary hematopoietic stem cells	blood
13	chr6:12894200-12897400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr6:12894200-12897400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr6:12894200-12897600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr6:12894200-12899200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr6:12894200-12903200	Weak transcription	Psoas Muscle	Psoas
18	chr6:12894200-12903400	Weak transcription	HSMM	muscle
19	chr6:12894400-12895800	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr6:12894400-12896000	Weak transcription	Colon Smooth Muscle	Colon
21	chr6:12894400-12896200	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr6:12894400-12896200	Weak transcription	Stomach Smooth Muscle	stomach
23	chr6:12894400-12897400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr6:12894600-12895800	Weak transcription	Fetal Heart	heart
25	chr6:12894600-12896000	Weak transcription	Brain Anterior Caudate	brain
26	chr6:12894600-12897400	Weak transcription	Fetal Kidney	kidney
27	chr6:12894800-12896600	Weak transcription	Pancreas	Pancrea

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