Variant report

Variant	rs10840462
Chromosome Location	chr11:10684290-10684291
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	chr11:10665534..10668459-chr11:10683707..10686559,2	K562	blood:
2	chr11:10669554..10672277-chr11:10684119..10685938,2	MCF-7	breast:

Extended variants
information (count: 69 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10219376	0.82[EUR][1000 genomes]
rs10431031	0.86[EUR][1000 genomes]
rs10770128	0.95[CEU][hapmap];0.91[EUR][1000 genomes]
rs10770129	0.90[CEU][hapmap];0.81[CHB][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10770130	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10770132	0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs10770133	0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs10840451	0.90[CEU][hapmap];0.86[EUR][1000 genomes]
rs10840454	0.93[EUR][1000 genomes]
rs10840455	0.95[CEU][hapmap];0.93[EUR][1000 genomes]
rs10840456	0.90[CEU][hapmap];0.81[CHB][hapmap];0.90[JPT][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10840458	0.87[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs10840459	0.89[ASN][1000 genomes]
rs10840460	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840461	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840463	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840464	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840465	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840466	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840467	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10840468	0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs11042909	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11042910	0.85[JPT][hapmap]
rs11042911	0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs11042913	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12363422	0.85[ASN][1000 genomes]
rs12420672	0.85[ASN][1000 genomes]
rs12420675	0.85[ASN][1000 genomes]
rs1390572	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1390573	0.87[ASN][1000 genomes]
rs1425149	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1425150	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1425151	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1544862	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1544863	0.87[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs16908157	0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs16908159	0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs16908162	0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs1845832	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1874444	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1895712	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2098840	0.95[ASN][1000 genomes]
rs34554801	0.89[ASN][1000 genomes]
rs35040034	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35165550	0.85[ASN][1000 genomes]
rs4243916	0.87[ASN][1000 genomes]
rs4909946	0.87[ASN][1000 genomes]
rs4910166	0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs7123106	0.81[EUR][1000 genomes]
rs7127014	0.83[EUR][1000 genomes]
rs722274	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs745336	0.87[ASN][1000 genomes]
rs750540	0.85[ASN][1000 genomes]
rs7925193	0.90[JPT][hapmap]
rs7933525	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7935285	0.88[CEU][hapmap];0.95[EUR][1000 genomes]
rs7938027	0.87[ASN][1000 genomes]
rs7938635	0.95[CEU][hapmap];0.95[EUR][1000 genomes]
rs7939662	0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs7939686	0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs881870	0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs903825	0.85[ASN][1000 genomes]
rs903826	0.85[ASN][1000 genomes]
rs903827	0.85[ASN][1000 genomes]
rs903828	0.85[ASN][1000 genomes]
rs9633862	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9633863	0.88[EUR][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:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:10674600-10689600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr11:10680600-10696200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr11:10680800-10687200	Weak transcription	Small Intestine	intestine
4	chr11:10681000-10687800	Weak transcription	Brain Angular Gyrus	brain
5	chr11:10681000-10688800	Weak transcription	Colonic Mucosa	Colon
6	chr11:10681200-10685400	Weak transcription	Primary hematopoietic stem cells	blood
7	chr11:10681200-10685800	Weak transcription	Psoas Muscle	Psoas
8	chr11:10681400-10685400	Weak transcription	Fetal Muscle Leg	muscle
9	chr11:10681600-10685000	Weak transcription	Brain Cingulate Gyrus	brain
10	chr11:10681600-10685400	Weak transcription	Primary B cells from peripheral blood	blood
11	chr11:10681600-10685800	Weak transcription	Fetal Intestine Small	intestine
12	chr11:10681600-10689000	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr11:10681800-10684400	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr11:10682200-10685000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr11:10682200-10685000	Weak transcription	Brain Anterior Caudate	brain
16	chr11:10682200-10685400	Weak transcription	Fetal Thymus	thymus
17	chr11:10682200-10685800	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr11:10682200-10685800	Weak transcription	Esophagus	oesophagus
19	chr11:10682200-10687400	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr11:10682200-10688200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr11:10682200-10690400	Weak transcription	Duodenum Mucosa	Duodenum
22	chr11:10682400-10685800	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr11:10682400-10687600	Weak transcription	Osteobl	bone
24	chr11:10682600-10684600	Weak transcription	Brain Substantia Nigra	brain
25	chr11:10682600-10685400	Weak transcription	Adipose Nuclei	Adipose
26	chr11:10682600-10685400	Weak transcription	Fetal Muscle Trunk	muscle
27	chr11:10682600-10685400	Weak transcription	Rectal Smooth Muscle	rectum
28	chr11:10682600-10687800	Weak transcription	A549	lung
29	chr11:10682600-10687800	Weak transcription	Hela-S3	cervix
30	chr11:10682600-10688800	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr11:10682800-10684400	Weak transcription	Ovary	ovary
32	chr11:10682800-10685000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr11:10682800-10688200	Weak transcription	Right Atrium	heart
34	chr11:10683000-10685400	Weak transcription	Spleen	Spleen
35	chr11:10683000-10685800	Weak transcription	Right Ventricle	heart
36	chr11:10683000-10687800	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr11:10683200-10685000	Weak transcription	NHDF-Ad	bronchial
38	chr11:10683200-10685600	Weak transcription	Lung	lung
39	chr11:10683200-10686200	Weak transcription	K562	blood
40	chr11:10683200-10687400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr11:10683400-10687600	Strong transcription	Fetal Stomach	stomach
42	chr11:10683400-10687800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr11:10683600-10684800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
44	chr11:10683600-10687400	Weak transcription	NHLF	lung
45	chr11:10683800-10684400	Enhancers	Colon Smooth Muscle	Colon
46	chr11:10683800-10692400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr11:10684000-10685800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr11:10684000-10685800	Strong transcription	Aorta	Aorta
49	chr11:10684000-10686000	Genic enhancers	Stomach Smooth Muscle	stomach
50	chr11:10684000-10686400	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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