Variant report

Variant	rs2820228
Chromosome Location	chr6:35062058-35062059
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	chr6:35040084..35042469-chr6:35059564..35062383,2	MCF-7	breast:
2	chr6:35060379..35062413-chr6:35062564..35064850,2	K562	blood:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10947537	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs12661389	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1535815	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2257663	0.93[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2494099	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2494100	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2689091	0.85[CEU][hapmap];0.89[CHB][hapmap];0.80[JPT][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2689094	0.89[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2689096	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs2762335	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2762337	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2762338	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2762339	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2762340	0.93[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2762343	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2762345	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2820223	0.84[CHB][hapmap];0.80[JPT][hapmap];0.83[ASN][1000 genomes]
rs2820226	0.91[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2820232	0.83[CHB][hapmap];0.82[ASN][1000 genomes]
rs2820233	0.85[CHB][hapmap];0.81[ASN][1000 genomes]
rs2820234	0.81[ASN][1000 genomes]
rs2820240	0.85[JPT][hapmap]
rs6925326	1.00[YRI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869750	chr6:35031548-35085585	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35050000-35063800	Weak transcription	HUVEC	blood vessel
2	chr6:35051800-35064000	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr6:35053400-35064200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr6:35054000-35063800	Weak transcription	Stomach Mucosa	stomach
5	chr6:35055000-35064000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr6:35055800-35064000	Weak transcription	NHEK	skin
7	chr6:35056600-35064000	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr6:35056600-35064000	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr6:35056600-35064200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr6:35056800-35063400	Weak transcription	Brain Anterior Caudate	brain
11	chr6:35057000-35063400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr6:35057000-35063800	Weak transcription	Brain Angular Gyrus	brain
13	chr6:35057200-35062200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr6:35057200-35062600	Weak transcription	Primary B cells from peripheral blood	blood
15	chr6:35057200-35062800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr6:35057200-35062800	Enhancers	NHDF-Ad	bronchial
17	chr6:35057400-35062200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr6:35057600-35063800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr6:35057800-35063400	Weak transcription	Brain Germinal Matrix	brain
20	chr6:35058000-35063600	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr6:35058000-35064200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr6:35058200-35064000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr6:35058400-35062200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr6:35058400-35062200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr6:35058800-35062400	Enhancers	Osteobl	bone
26	chr6:35058800-35063800	Weak transcription	Duodenum Mucosa	Duodenum
27	chr6:35058800-35064000	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr6:35059000-35063400	Weak transcription	HUES64 Cell Line	embryonic stem cell
29	chr6:35059400-35062400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr6:35059400-35063600	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr6:35059400-35063800	Weak transcription	Brain Cingulate Gyrus	brain
32	chr6:35059600-35063600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr6:35060000-35062200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr6:35060400-35062200	Enhancers	Sigmoid Colon	Sigmoid Colon
35	chr6:35060400-35062600	Enhancers	HSMMtube	muscle
36	chr6:35060400-35064000	Weak transcription	Psoas Muscle	Psoas
37	chr6:35060600-35062200	Weak transcription	Primary neutrophils fromperipheralblood	blood
38	chr6:35060600-35063000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr6:35060600-35063800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr6:35060600-35064000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr6:35060600-35064200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr6:35060600-35064600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr6:35060800-35063400	Weak transcription	Brain Substantia Nigra	brain
44	chr6:35060800-35063600	Weak transcription	Brain Hippocampus Middle	brain
45	chr6:35060800-35065000	Weak transcription	Left Ventricle	heart
46	chr6:35061000-35063600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr6:35061000-35063600	Weak transcription	Duodenum Smooth Muscle	Duodenum
48	chr6:35061000-35063600	Weak transcription	Rectal Smooth Muscle	rectum
49	chr6:35061000-35063600	Weak transcription	Skeletal Muscle Male	skeletal muscle
50	chr6:35061000-35063800	Weak transcription	Fetal Heart	heart

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