Variant report

Variant	rs9880541
Chromosome Location	chr3:69881273-69881274
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:69880455..69881274-chr9:90001254..90001794,2	MCF-7	breast:
2	chr3:69879804..69881534-chr3:69885373..69887297,2	MCF-7	breast:

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs12106897	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12330475	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs13314417	1.00[TSI][hapmap]
rs13316652	1.00[TSI][hapmap]
rs13317316	1.00[EUR][1000 genomes]
rs13318952	1.00[EUR][1000 genomes]
rs13319628	1.00[EUR][1000 genomes]
rs13321870	1.00[EUR][1000 genomes]
rs13323954	1.00[EUR][1000 genomes]
rs13325308	1.00[EUR][1000 genomes]
rs13325643	1.00[EUR][1000 genomes]
rs17006276	1.00[EUR][1000 genomes]
rs17006426	1.00[EUR][1000 genomes]
rs17006549	1.00[TSI][hapmap]
rs28545381	1.00[EUR][1000 genomes]
rs28548134	1.00[EUR][1000 genomes]
rs28583802	1.00[EUR][1000 genomes]
rs28669920	1.00[EUR][1000 genomes]
rs28811715	1.00[EUR][1000 genomes]
rs41370746	1.00[TSI][hapmap]
rs41440046	1.00[TSI][hapmap]
rs55906238	1.00[EUR][1000 genomes]
rs56086555	1.00[EUR][1000 genomes]
rs59761935	1.00[EUR][1000 genomes]
rs60618858	1.00[EUR][1000 genomes]
rs61545912	1.00[EUR][1000 genomes]
rs61678936	1.00[EUR][1000 genomes]
rs6770281	1.00[EUR][1000 genomes]
rs6780009	1.00[EUR][1000 genomes]
rs72946160	1.00[EUR][1000 genomes]
rs73836017	1.00[EUR][1000 genomes]
rs73836019	1.00[EUR][1000 genomes]
rs73836023	1.00[EUR][1000 genomes]
rs73836026	1.00[EUR][1000 genomes]
rs73836027	1.00[EUR][1000 genomes]
rs73836029	1.00[EUR][1000 genomes]
rs73836030	1.00[EUR][1000 genomes]
rs73836031	1.00[EUR][1000 genomes]
rs73836032	1.00[EUR][1000 genomes]
rs7620183	1.00[EUR][1000 genomes]
rs7631348	1.00[EUR][1000 genomes]
rs7633732	1.00[EUR][1000 genomes]
rs9310167	1.00[EUR][1000 genomes]
rs9310170	1.00[EUR][1000 genomes]
rs9824148	1.00[TSI][hapmap]
rs9824748	1.00[EUR][1000 genomes]
rs9824825	1.00[EUR][1000 genomes]
rs9827219	1.00[TSI][hapmap]
rs9830619	1.00[EUR][1000 genomes]
rs9832459	1.00[TSI][hapmap];0.84[YRI][hapmap];1.00[EUR][1000 genomes]
rs9834247	0.84[YRI][hapmap];1.00[EUR][1000 genomes]
rs9836115	0.84[ASW][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9836245	1.00[EUR][1000 genomes]
rs9837652	1.00[EUR][1000 genomes]
rs9843115	1.00[TSI][hapmap]
rs9846358	1.00[EUR][1000 genomes]
rs9846982	1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs9854199	1.00[EUR][1000 genomes]
rs9854296	1.00[EUR][1000 genomes]
rs9869929	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9870280	1.00[EUR][1000 genomes]
rs9874322	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9874957	1.00[ASW][hapmap];0.90[LWK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9875933	1.00[EUR][1000 genomes]
rs9877286	1.00[EUR][1000 genomes]
rs9879292	1.00[EUR][1000 genomes]
rs9879921	0.92[AFR][1000 genomes];1.00[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	esv3507784	chr3:69802539-69959607	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	esv3507785	chr3:69802539-69959607	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv21050	chr3:69881179-69881876	Enhancers Weak transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv19391	chr3:69881179-69884045	Weak transcription Enhancers Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69870200-69886000	Weak transcription	Aorta	Aorta
2	chr3:69870600-69886200	Weak transcription	Colon Smooth Muscle	Colon
3	chr3:69873800-69887600	Weak transcription	NHLF	lung
4	chr3:69879400-69881800	Weak transcription	Fetal Heart	heart
5	chr3:69879600-69884200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr3:69879600-69886000	Weak transcription	Right Atrium	heart
7	chr3:69879600-69886000	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr3:69881000-69881400	Enhancers	Brain Hippocampus Middle	brain
9	chr3:69881000-69881400	Enhancers	Left Ventricle	heart
10	chr3:69881000-69881600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr3:69881000-69881600	Enhancers	Psoas Muscle	Psoas
12	chr3:69881000-69881600	Enhancers	Right Ventricle	heart
13	chr3:69881200-69881400	Enhancers	Ovary	ovary
14	chr3:69881200-69886200	Weak transcription	K562	blood

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