Variant report

Variant	rs2895300
Chromosome Location	chr3:105136005-105136006
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	chr3:105131124..105132764-chr3:105135409..105137743,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs11710166	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11710857	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11713535	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11714275	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11714277	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11715283	0.85[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11716035	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11718405	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11718457	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11719817	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1898655	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1955135	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2200473	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2399049	0.85[ASN][1000 genomes]
rs34029528	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3772542	0.82[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3772544	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3772547	1.00[ASW][hapmap];0.82[CEU][hapmap];1.00[CHB][hapmap];0.95[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs474355	0.83[TSI][hapmap]
rs481177	0.82[CEU][hapmap];1.00[CHB][hapmap];0.88[MEX][hapmap];0.87[TSI][hapmap];0.85[ASN][1000 genomes]
rs526297	0.82[CEU][hapmap];1.00[CHB][hapmap];0.95[GIH][hapmap];0.88[MEX][hapmap];0.91[TSI][hapmap];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs57986655	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59322590	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs598425	0.82[CEU][hapmap];1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs61522255	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6771935	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6771987	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6786815	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6794273	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73175407	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73175433	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73175435	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73175442	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73175449	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73175451	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73175463	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73175491	0.83[EUR][1000 genomes]
rs73177459	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73177465	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73177470	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73177478	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73177489	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73177494	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73179378	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73179384	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181374	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181376	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181380	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181387	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181395	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181396	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181397	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181401	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73183103	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73183108	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183112	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183114	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183115	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183185	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183186	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183187	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183188	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183198	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73185106	0.81[ASN][1000 genomes]
rs73185114	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73185115	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73189021	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73189028	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73189034	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73189060	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73192717	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73192730	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73192733	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73192737	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73192751	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73192754	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73192770	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7647426	0.90[ASN][1000 genomes]
rs7647531	0.90[ASN][1000 genomes]
rs901280	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs978436	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[GIH][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525071	chr3:105004853-105409321	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv829650	chr3:105070893-105255036	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv877304	chr3:105122214-105198374	Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105121600-105136600	Weak transcription	HSMM	muscle
2	chr3:105122400-105136600	Weak transcription	Osteobl	bone
3	chr3:105128800-105136600	Weak transcription	HMEC	breast
4	chr3:105134400-105136800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr3:105134400-105136800	Weak transcription	Brain Hippocampus Middle	brain
6	chr3:105134400-105141400	Weak transcription	Brain Cingulate Gyrus	brain
7	chr3:105134400-105145400	Weak transcription	Brain Angular Gyrus	brain
8	chr3:105135000-105136400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr3:105135000-105136600	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr3:105135000-105137200	Enhancers	HUVEC	blood vessel
11	chr3:105135000-105137600	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr3:105135000-105141400	Weak transcription	Brain Anterior Caudate	brain
13	chr3:105135000-105145800	Weak transcription	Brain Substantia Nigra	brain
14	chr3:105135200-105136400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr3:105135200-105137000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr3:105135200-105152000	Weak transcription	NH-A	brain
17	chr3:105135400-105136600	Weak transcription	A549	lung
18	chr3:105135400-105137400	Enhancers	Primary B cells from cord blood	blood
19	chr3:105135600-105137400	Enhancers	Primary hematopoietic stem cells short term culture	blood
20	chr3:105135600-105139400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr3:105135800-105136600	Enhancers	Monocytes-CD14+_RO01746	blood
22	chr3:105135800-105136800	Enhancers	Primary B cells from peripheral blood	blood
23	chr3:105135800-105137200	Enhancers	NHEK	skin
24	chr3:105135800-105137400	Enhancers	Primary hematopoietic stem cells	blood
25	chr3:105135800-105137400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr3:105135800-105137600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr3:105136000-105136600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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