Variant report

Variant	rs6798785
Chromosome Location	chr3:177422258-177422259
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	chr3:177412767..177415044-chr3:177421223..177423851,2	MCF-7	breast:

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10513747	0.86[ASN][1000 genomes]
rs10513748	0.96[ASN][1000 genomes]
rs10513749	0.96[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10513750	0.96[CEU][hapmap];0.94[CHB][hapmap];0.89[CHD][hapmap];0.91[GIH][hapmap];0.89[JPT][hapmap];0.91[TSI][hapmap];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10936953	0.94[CHB][hapmap]
rs10936954	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12487458	0.96[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12489304	0.94[CHB][hapmap];0.89[JPT][hapmap];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12490852	0.84[EUR][1000 genomes]
rs12496321	0.82[ASN][1000 genomes]
rs13059117	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13059514	0.94[CHB][hapmap]
rs13060224	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13060502	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13064192	0.82[ASN][1000 genomes]
rs13074455	0.84[ASN][1000 genomes]
rs13082519	0.96[CEU][hapmap];0.94[CHB][hapmap];0.89[CHD][hapmap];0.91[GIH][hapmap];0.89[JPT][hapmap];0.90[MEX][hapmap];0.91[TSI][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13097562	0.83[ASN][1000 genomes]
rs13097723	0.97[ASN][1000 genomes]
rs13098037	0.83[ASN][1000 genomes]
rs13340118	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13340167	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13340172	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1499809	0.82[ASN][1000 genomes]
rs1499810	0.99[ASN][1000 genomes]
rs1499811	0.85[ASN][1000 genomes]
rs1500047	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1500048	0.84[ASN][1000 genomes]
rs1604032	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17635512	0.82[ASN][1000 genomes]
rs17635597	0.84[ASN][1000 genomes]
rs1846628	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2062499	0.96[CEU][hapmap];0.94[CHB][hapmap];0.89[CHD][hapmap];0.91[GIH][hapmap];0.89[JPT][hapmap];0.90[MEX][hapmap];0.91[TSI][hapmap];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2062500	0.94[CHB][hapmap]
rs28700961	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs28711160	0.95[ASN][1000 genomes]
rs33964414	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34066617	0.84[ASN][1000 genomes]
rs34188001	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34347103	0.84[ASN][1000 genomes]
rs34407557	0.82[ASN][1000 genomes]
rs34557886	0.82[ASN][1000 genomes]
rs34638059	0.82[ASN][1000 genomes]
rs34763113	0.82[ASN][1000 genomes]
rs34992356	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35110045	0.82[ASN][1000 genomes]
rs35468531	0.84[ASN][1000 genomes]
rs35610650	0.82[ASN][1000 genomes]
rs35652846	0.82[ASN][1000 genomes]
rs35791913	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35830472	0.84[ASN][1000 genomes]
rs35868955	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs36055300	0.82[ASN][1000 genomes]
rs4857725	0.97[ASN][1000 genomes]
rs4857726	0.97[ASN][1000 genomes]
rs57405296	0.86[ASN][1000 genomes]
rs61541774	0.82[ASN][1000 genomes]
rs62283347	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6443481	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6443482	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs66636257	0.82[ASN][1000 genomes]
rs67189039	0.82[ASN][1000 genomes]
rs6765836	0.97[ASN][1000 genomes]
rs6772134	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6779492	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67797381	0.82[ASN][1000 genomes]
rs6793629	1.00[CEU][hapmap];0.94[CHB][hapmap];0.89[CHD][hapmap];0.91[GIH][hapmap];0.89[JPT][hapmap];0.90[MEX][hapmap];0.93[TSI][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6793647	0.95[ASN][1000 genomes]
rs6803889	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs71308158	0.82[ASN][1000 genomes]
rs7610506	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7615900	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7639373	0.94[CHB][hapmap];0.89[JPT][hapmap];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7641099	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7644248	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7646117	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7652174	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs937507	0.96[ASN][1000 genomes]
rs937561	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[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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