Variant report

Variant	rs10904238
Chromosome Location	chr10:4394552-4394553
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:4394419..4396043-chr10:4399744..4402367,2	MCF-7	breast:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10508281	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10751967	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10904236	0.80[EUR][1000 genomes]
rs10904237	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10904245	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11252476	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11252477	0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11252478	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11252482	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11252491	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11252496	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12217543	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12217939	0.82[ASN][1000 genomes]
rs12219673	0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12569665	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12782979	0.95[EUR][1000 genomes]
rs1926808	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1926809	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2025773	0.82[ASN][1000 genomes]
rs2025774	0.82[ASN][1000 genomes]
rs2025775	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2182586	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4265499	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4272695	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4550130	0.82[EUR][1000 genomes]
rs4881317	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs60075506	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61829444	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6601836	0.81[EUR][1000 genomes]
rs6601840	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7082820	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72766472	0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7900466	0.80[EUR][1000 genomes]
rs7919885	0.81[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	nsv894786	chr10:4385379-4441989	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv894787	chr10:4385379-4857717	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	20 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	chr10:4386600-4394600	Weak transcription	Left Ventricle	heart
2	chr10:4387800-4394600	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr10:4388000-4396200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr10:4388600-4394600	Weak transcription	Adipose Nuclei	Adipose
5	chr10:4388800-4395600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr10:4390000-4394600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr10:4393400-4395000	Enhancers	Pancreatic Islets	Pancreatic Islet
8	chr10:4393600-4394800	Enhancers	HMEC	breast
9	chr10:4393600-4396400	Enhancers	HUVEC	blood vessel
10	chr10:4393800-4394800	Enhancers	NHEK	skin
11	chr10:4393800-4395200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr10:4393800-4397000	Enhancers	Colon Smooth Muscle	Colon
13	chr10:4393800-4397000	Enhancers	NHDF-Ad	bronchial
14	chr10:4393800-4397200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr10:4393800-4397200	Enhancers	NH-A	brain
16	chr10:4393800-4398000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr10:4394000-4395000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr10:4394000-4395600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr10:4394200-4394800	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr10:4394200-4395200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr10:4394200-4395600	Enhancers	Placenta Amnion	Placenta Amnion
22	chr10:4394200-4396400	Enhancers	Hela-S3	cervix
23	chr10:4394200-4396800	Enhancers	Rectal Smooth Muscle	rectum
24	chr10:4394200-4397000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr10:4394400-4394600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr10:4394400-4395000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr10:4394400-4395400	Enhancers	Duodenum Smooth Muscle	Duodenum
28	chr10:4394400-4395600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr10:4394400-4395600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr10:4394400-4395600	Enhancers	Aorta	Aorta
31	chr10:4394400-4395600	Enhancers	Fetal Muscle Leg	muscle
32	chr10:4394400-4395600	Enhancers	Lung	lung
33	chr10:4394400-4395600	Enhancers	Right Atrium	heart
34	chr10:4394400-4395800	Enhancers	Fetal Lung	lung
35	chr10:4394400-4396600	Enhancers	Stomach Smooth Muscle	stomach

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