Variant report

Variant	rs17565877
Chromosome Location	chr2:33380436-33380437
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	chr2:33372580..33375286-chr2:33379288..33381912,2	MCF-7	breast:

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs10211514	0.80[EUR][1000 genomes]
rs10432657	0.82[CEU][hapmap]
rs10495783	0.81[JPT][hapmap]
rs10495784	0.82[CEU][hapmap]
rs1065324	0.92[CEU][hapmap];0.81[CHB][hapmap];0.91[JPT][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11124309	0.86[JPT][hapmap]
rs12104955	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12611532	0.89[CEU][hapmap];0.85[JPT][hapmap];0.80[EUR][1000 genomes]
rs12611549	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12617948	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12617970	0.92[CEU][hapmap];0.81[CHB][hapmap];0.91[JPT][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12620853	0.92[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1454379	0.81[CEU][hapmap]
rs17566780	0.88[CEU][hapmap];0.90[JPT][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17567417	0.85[CEU][hapmap]
rs17568051	0.89[CEU][hapmap]
rs17641062	0.93[CEU][hapmap];0.86[JPT][hapmap];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17641115	0.82[JPT][hapmap]
rs17641180	0.93[CEU][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17641906	0.88[CEU][hapmap]
rs17642074	0.81[CEU][hapmap]
rs1947444	0.96[CEU][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2061026	0.86[CEU][hapmap]
rs2061027	0.93[CEU][hapmap];0.83[EUR][1000 genomes]
rs2290448	0.81[CEU][hapmap]
rs2367619	0.80[EUR][1000 genomes]
rs2367623	0.85[CEU][hapmap]
rs34577456	0.81[EUR][1000 genomes]
rs4474865	0.96[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4542826	0.90[JPT][hapmap]
rs4670186	0.84[EUR][1000 genomes]
rs4670225	0.81[JPT][hapmap]
rs4670245	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4670251	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4670252	0.80[EUR][1000 genomes]
rs4670778	0.93[CEU][hapmap];0.91[JPT][hapmap];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4670822	0.80[EUR][1000 genomes]
rs4670828	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4670833	0.80[EUR][1000 genomes]
rs4670836	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4670849	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4670857	0.81[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap];0.80[EUR][1000 genomes]
rs4670860	0.86[CEU][hapmap];0.86[JPT][hapmap];0.80[EUR][1000 genomes]
rs4670863	0.80[EUR][1000 genomes]
rs4670928	0.92[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4671010	0.93[CEU][hapmap];0.83[EUR][1000 genomes]
rs4671024	0.82[CEU][hapmap]
rs4671035	0.82[CEU][hapmap]
rs5006120	0.81[EUR][1000 genomes]
rs5006126	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs55673259	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55911139	0.85[EUR][1000 genomes]
rs56282338	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56988251	0.80[ASN][1000 genomes]
rs60000782	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs60692621	0.84[ASN][1000 genomes]
rs62133341	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62146677	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62146678	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62146679	0.81[EUR][1000 genomes]
rs62146726	0.83[EUR][1000 genomes]
rs6543698	0.86[CEU][hapmap];0.82[CHB][hapmap];0.82[JPT][hapmap];0.80[EUR][1000 genomes]
rs6543699	0.96[CEU][hapmap];0.82[CHB][hapmap];0.91[JPT][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6543700	0.83[CEU][hapmap];0.80[EUR][1000 genomes]
rs6705772	0.93[CEU][hapmap];0.83[EUR][1000 genomes]
rs6707904	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6707911	0.86[JPT][hapmap]
rs6707962	0.85[CEU][hapmap];0.86[JPT][hapmap]
rs6708836	0.85[JPT][hapmap]
rs6712473	0.85[CEU][hapmap];0.86[JPT][hapmap];0.80[EUR][1000 genomes]
rs6715793	0.92[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6720059	0.80[EUR][1000 genomes]
rs6720185	0.85[CEU][hapmap];0.83[JPT][hapmap];0.80[EUR][1000 genomes]
rs6720405	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6728094	0.81[CEU][hapmap]
rs6736908	0.80[EUR][1000 genomes]
rs6743685	0.89[CEU][hapmap];0.82[CHB][hapmap];0.91[JPT][hapmap];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6748806	0.80[EUR][1000 genomes]
rs6751657	0.85[CEU][hapmap];0.82[CHB][hapmap];0.86[JPT][hapmap];0.80[EUR][1000 genomes]
rs6759943	0.80[EUR][1000 genomes]
rs726429	0.92[CEU][hapmap];0.82[CHB][hapmap];0.86[JPT][hapmap];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7571401	0.80[CEU][hapmap]
rs7580348	0.93[CEU][hapmap];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7584473	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7595240	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs961239	0.80[CEU][hapmap]
rs996103	0.85[CEU][hapmap];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv998167	chr2:33074313-33541100	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv535623	chr2:33074313-33541100	Genic enhancers Enhancers Weak transcription Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
3	nsv1005435	chr2:33136117-33747159	Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
4	nsv535624	chr2:33136117-33747159	Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
5	esv33628	chr2:33257484-33455355	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv873789	chr2:33297967-33390188	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv873790	chr2:33369582-33466483	Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:33360200-33385800	Weak transcription	Placenta	Placenta
2	chr2:33362600-33382400	Weak transcription	HUVEC	blood vessel
3	chr2:33367200-33384000	Weak transcription	K562	blood
4	chr2:33369600-33389800	Weak transcription	Right Atrium	heart
5	chr2:33369800-33404000	Weak transcription	Right Ventricle	heart
6	chr2:33371600-33382400	Weak transcription	Fetal Kidney	kidney
7	chr2:33371600-33383800	Weak transcription	HSMMtube	muscle
8	chr2:33371600-33395600	Weak transcription	Psoas Muscle	Psoas
9	chr2:33371800-33382800	Weak transcription	Rectal Smooth Muscle	rectum
10	chr2:33373200-33382800	Weak transcription	Left Ventricle	heart
11	chr2:33373800-33382000	Weak transcription	Fetal Heart	heart
12	chr2:33374000-33384000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr2:33375000-33408400	Weak transcription	Fetal Muscle Leg	muscle
14	chr2:33378200-33382800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr2:33378400-33383200	Weak transcription	HSMM	muscle
16	chr2:33378600-33384000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr2:33379000-33381200	Weak transcription	Aorta	Aorta
18	chr2:33379000-33381400	Weak transcription	NH-A	brain
19	chr2:33379200-33382400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr2:33379200-33383400	Weak transcription	Ovary	ovary
21	chr2:33379400-33381000	Weak transcription	Osteobl	bone
22	chr2:33379400-33382200	Weak transcription	NHDF-Ad	bronchial
23	chr2:33379600-33381200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr2:33379600-33382200	Weak transcription	NHLF	lung
25	chr2:33379600-33382400	Weak transcription	NHEK	skin
26	chr2:33379600-33383400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr2:33379600-33383400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr2:33379600-33383400	Weak transcription	HMEC	breast
29	chr2:33379800-33380600	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr2:33379800-33382000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr2:33379800-33382000	Weak transcription	Stomach Smooth Muscle	stomach
32	chr2:33379800-33382400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr2:33380000-33381200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr2:33380000-33382000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr2:33380000-33382600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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