Variant report

Variant	rs6798789
Chromosome Location	chr3:177422275-177422276
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	chr3:177412767..177415044-chr3:177421223..177423851,2	MCF-7	breast:

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10513751	0.94[CEU][hapmap];0.88[EUR][1000 genomes]
rs11707843	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12486651	0.90[EUR][1000 genomes]
rs12487647	0.90[EUR][1000 genomes]
rs12493064	0.89[EUR][1000 genomes]
rs12631987	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12633573	0.90[EUR][1000 genomes]
rs12638525	1.00[ASN][1000 genomes]
rs1392197	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1392198	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16828483	0.90[EUR][1000 genomes]
rs16828521	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16848236	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1846585	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1846586	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34585605	0.94[CEU][hapmap];0.85[GIH][hapmap];0.85[MEX][hapmap];0.80[TSI][hapmap];0.90[EUR][1000 genomes]
rs56673356	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs57793263	0.90[EUR][1000 genomes]
rs62283317	0.90[EUR][1000 genomes]
rs62283321	0.90[EUR][1000 genomes]
rs62283322	0.90[EUR][1000 genomes]
rs62283323	0.90[EUR][1000 genomes]
rs62283343	0.90[EUR][1000 genomes]
rs62283344	0.90[EUR][1000 genomes]
rs62283346	0.88[EUR][1000 genomes]
rs62283348	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62283349	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62283351	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62283352	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62283356	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6766877	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6768558	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6782388	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6783540	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs67889675	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6800850	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6802610	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73174869	0.90[EUR][1000 genomes]
rs73174897	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7634114	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7646007	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7648462	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7648551	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7651286	0.90[EUR][1000 genomes]
rs9681874	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2752972	chr3:176924298-177425298	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv931055	chr3:177229521-177889872	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv998537	chr3:177403421-177425648	Flanking Active TSS Weak transcription Enhancers Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1009087	chr3:177405231-177422275	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv1013114	chr3:177421455-177443968	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:177412400-177423800	Weak transcription	Thymus	Thymus
2	chr3:177412600-177424200	Weak transcription	Fetal Brain Male	brain
3	chr3:177412800-177424200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr3:177413600-177432000	Weak transcription	Primary hematopoietic stem cells	blood
5	chr3:177419000-177423800	Weak transcription	Stomach Smooth Muscle	stomach
6	chr3:177421000-177423600	Weak transcription	Fetal Muscle Trunk	muscle
7	chr3:177421200-177422400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr3:177421600-177422400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr3:177421600-177422800	Enhancers	Psoas Muscle	Psoas
10	chr3:177421800-177424000	Weak transcription	Brain Anterior Caudate	brain
11	chr3:177422000-177423600	Weak transcription	Fetal Muscle Leg	muscle
12	chr3:177422000-177423600	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr3:177422000-177423600	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr3:177422000-177423800	Weak transcription	Left Ventricle	heart
15	chr3:177422200-177423000	Enhancers	Fetal Heart	heart
16	chr3:177422200-177423400	Weak transcription	Right Atrium	heart
17	chr3:177422200-177423600	Weak transcription	Ovary	ovary
18	chr3:177422200-177424000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr3:177422200-177424000	Weak transcription	Osteobl	bone
20	chr3:177422200-177424400	Weak transcription	Right Ventricle	heart
21	chr3:177422200-177431800	Weak transcription	Aorta	Aorta

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