Variant report

Variant	rs10840459
Chromosome Location	chr11:10682139-10682140
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:10674925..10678334-chr11:10679453..10682484,4	MCF-7	breast:
2	chr11:10681209..10682904-chr11:10735128..10737783,2	K562	blood:

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10770129	0.84[JPT][hapmap]
rs10770130	0.91[ASN][1000 genomes]
rs10770132	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10770133	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10840456	0.84[JPT][hapmap]
rs10840458	0.86[CHB][hapmap];0.89[JPT][hapmap];0.91[ASN][1000 genomes]
rs10840460	0.89[ASN][1000 genomes]
rs10840461	0.89[ASN][1000 genomes]
rs10840462	0.89[ASN][1000 genomes]
rs10840463	0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs10840464	0.89[ASN][1000 genomes]
rs10840465	0.89[ASN][1000 genomes]
rs10840466	0.89[ASN][1000 genomes]
rs10840467	0.89[ASN][1000 genomes]
rs10840468	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11042910	0.86[CHB][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs11042911	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11042913	0.89[ASN][1000 genomes]
rs12363422	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12420672	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12420675	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1390572	0.89[ASN][1000 genomes]
rs1390573	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1425149	0.89[ASN][1000 genomes]
rs1425150	0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs1425151	0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs1544862	0.89[ASN][1000 genomes]
rs1544863	0.86[CHB][hapmap];0.89[JPT][hapmap];0.89[ASN][1000 genomes]
rs16908157	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16908159	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16908162	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1845832	0.89[ASN][1000 genomes]
rs1874444	0.89[ASN][1000 genomes]
rs1895712	0.89[ASN][1000 genomes]
rs2098840	0.90[ASN][1000 genomes]
rs34554801	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35040034	0.89[ASN][1000 genomes]
rs35165550	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4243916	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4909946	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4910166	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs722274	0.89[ASN][1000 genomes]
rs745336	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs750540	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7925193	0.85[CEU][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7933525	0.89[ASN][1000 genomes]
rs7938027	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7939662	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7939686	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs881870	1.00[CHB][hapmap];0.90[JPT][hapmap];0.90[ASN][1000 genomes]
rs903825	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs903826	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs903827	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs903828	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430319	chr11:10027543-10711224	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
2	nsv832063	chr11:10618485-10785281	ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:10673000-10682200	Enhancers	Placenta	Placenta
2	chr11:10673400-10682800	Enhancers	Ovary	ovary
3	chr11:10674600-10689600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr11:10676000-10683200	Enhancers	NHDF-Ad	bronchial
5	chr11:10676400-10683400	Genic enhancers	Fetal Stomach	stomach
6	chr11:10677000-10682200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr11:10677000-10683400	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr11:10677200-10682800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr11:10677400-10682200	Enhancers	Placenta Amnion	Placenta Amnion
10	chr11:10677400-10683000	Enhancers	Spleen	Spleen
11	chr11:10678400-10682200	Enhancers	Brain Anterior Caudate	brain
12	chr11:10678400-10682200	Enhancers	Esophagus	oesophagus
13	chr11:10678400-10682200	Enhancers	Right Atrium	heart
14	chr11:10678400-10682400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr11:10678400-10682600	Enhancers	Left Ventricle	heart
16	chr11:10678600-10682200	Enhancers	Right Ventricle	heart
17	chr11:10678800-10682200	Enhancers	Fetal Thymus	thymus
18	chr11:10678800-10682400	Enhancers	HSMM	muscle
19	chr11:10678800-10683000	Enhancers	HUVEC	blood vessel
20	chr11:10679400-10683200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
21	chr11:10679600-10682200	Enhancers	Duodenum Mucosa	Duodenum
22	chr11:10679600-10682400	Enhancers	NH-A	brain
23	chr11:10679600-10683400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr11:10679600-10683400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr11:10679800-10683200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr11:10679800-10683400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
27	chr11:10680000-10682200	Enhancers	Brain Inferior Temporal Lobe	brain
28	chr11:10680000-10682600	Enhancers	Rectal Smooth Muscle	rectum
29	chr11:10680200-10682400	Enhancers	Osteobl	bone
30	chr11:10680200-10682600	Enhancers	Skeletal Muscle Male	skeletal muscle
31	chr11:10680600-10682200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr11:10680600-10682800	Enhancers	Aorta	Aorta
33	chr11:10680600-10683600	Enhancers	NHLF	lung
34	chr11:10680600-10696200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
35	chr11:10680800-10683400	Enhancers	Colon Smooth Muscle	Colon
36	chr11:10680800-10687200	Weak transcription	Small Intestine	intestine
37	chr11:10681000-10687800	Weak transcription	Brain Angular Gyrus	brain
38	chr11:10681000-10688800	Weak transcription	Colonic Mucosa	Colon
39	chr11:10681200-10682400	Weak transcription	Brain Hippocampus Middle	brain
40	chr11:10681200-10683000	Enhancers	Muscle Satellite Cultured Cells	--
41	chr11:10681200-10683200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr11:10681200-10685400	Weak transcription	Primary hematopoietic stem cells	blood
43	chr11:10681200-10685800	Weak transcription	Psoas Muscle	Psoas
44	chr11:10681400-10683200	Enhancers	K562	blood
45	chr11:10681400-10685400	Weak transcription	Fetal Muscle Leg	muscle
46	chr11:10681600-10682600	Enhancers	A549	lung
47	chr11:10681600-10683800	Enhancers	Stomach Smooth Muscle	stomach
48	chr11:10681600-10684000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr11:10681600-10685000	Weak transcription	Brain Cingulate Gyrus	brain
50	chr11:10681600-10685400	Weak transcription	Primary B cells from peripheral blood	blood

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