Variant report

Variant	rs12571543
Chromosome Location	chr10:4889265-4889266
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:4875020..4877542-chr10:4888519..4891413,3	MCF-7	breast:
2	chr10:4886550..4889346-chr10:4889579..4891812,3	K562	blood:
3	chr10:4884243..4886043-chr10:4887608..4890011,2	MCF-7	breast:
4	chr10:4868225..4872491-chr10:4887658..4893097,7	K562	blood:
5	chr10:4889192..4892732-chr10:4894446..4896505,3	K562	blood:
6	chr10:4887846..4890181-chr10:4890997..4893869,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165568	Chromatin interaction

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs12569410	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12569715	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12569839	1.00[ASN][1000 genomes]
rs12570011	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12570641	1.00[ASN][1000 genomes]
rs12571065	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12571192	1.00[ASN][1000 genomes]
rs12571212	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12571691	1.00[ASN][1000 genomes]
rs12571940	1.00[ASN][1000 genomes]
rs12571967	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs12571976	1.00[ASN][1000 genomes]
rs12571980	1.00[ASN][1000 genomes]
rs12572008	1.00[ASN][1000 genomes]
rs12572181	1.00[ASN][1000 genomes]
rs12572449	0.86[ASN][1000 genomes]
rs12573010	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12573159	1.00[ASN][1000 genomes]
rs12573197	1.00[ASN][1000 genomes]
rs12573397	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12573398	1.00[ASN][1000 genomes]
rs12573501	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12573669	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12573690	1.00[ASN][1000 genomes]
rs12573808	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17133680	0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17133691	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17133693	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17133697	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17133705	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17133707	0.81[ASN][1000 genomes]
rs17133710	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17133724	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17133747	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17133748	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17133751	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17133752	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17133753	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17133759	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17133762	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17133779	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17133780	1.00[ASN][1000 genomes]
rs17133791	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17133794	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17133796	1.00[ASN][1000 genomes]
rs1869214	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1869215	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1869216	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1869217	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1869219	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1869220	0.82[CHB][hapmap];0.86[JPT][hapmap];1.00[ASN][1000 genomes]
rs1901642	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1993182	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2278869	1.00[ASN][1000 genomes]
rs2290348	1.00[ASN][1000 genomes]
rs2290349	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2290350	1.00[ASN][1000 genomes]
rs2397982	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2397983	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2397985	1.00[ASN][1000 genomes]
rs2397986	1.00[ASN][1000 genomes]
rs2924275	0.83[ASN][1000 genomes]
rs2961570	0.90[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs34882719	1.00[ASN][1000 genomes]
rs35340010	1.00[ASN][1000 genomes]
rs3750737	1.00[ASN][1000 genomes]
rs3750738	1.00[ASN][1000 genomes]
rs3750739	1.00[ASN][1000 genomes]
rs3750740	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs41289263	1.00[ASN][1000 genomes]
rs4339941	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4397733	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4480435	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4518987	1.00[ASN][1000 genomes]
rs4593903	1.00[ASN][1000 genomes]
rs72478258	0.98[ASN][1000 genomes]
rs7912440	0.90[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv894792	chr10:4832920-5498724	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv948794	chr10:4863093-5227382	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	nsv1045155	chr10:4872239-5211318	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv1040343	chr10:4872814-5196815	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv540462	chr10:4872814-5196815	Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv869470	chr10:4878904-5203685	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4869200-4889600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr10:4869200-4890400	Weak transcription	Right Atrium	heart
3	chr10:4869200-4891600	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr10:4869200-4892200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr10:4869400-4889600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr10:4869400-4889600	Weak transcription	HSMM	muscle
7	chr10:4869400-4891600	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr10:4869600-4889600	Weak transcription	NHEK	skin
9	chr10:4870600-4891800	Weak transcription	Fetal Brain Male	brain
10	chr10:4872600-4892400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr10:4874600-4891800	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr10:4876000-4891600	Weak transcription	Brain Angular Gyrus	brain
13	chr10:4878000-4891800	Weak transcription	Rectal Smooth Muscle	rectum
14	chr10:4878600-4894600	Weak transcription	Ovary	ovary
15	chr10:4878800-4889400	Weak transcription	Osteobl	bone
16	chr10:4878800-4891800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr10:4878800-4891800	Weak transcription	Fetal Kidney	kidney
18	chr10:4879200-4891600	Weak transcription	Colon Smooth Muscle	Colon
19	chr10:4879400-4891800	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr10:4879800-4891800	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr10:4879800-4891800	Weak transcription	Lung	lung
22	chr10:4880000-4890000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr10:4880000-4890400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr10:4880000-4891800	Weak transcription	Fetal Lung	lung
25	chr10:4880000-4891800	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr10:4880200-4891400	Weak transcription	Fetal Intestine Small	intestine
27	chr10:4880200-4894400	Weak transcription	Brain Germinal Matrix	brain
28	chr10:4880600-4891600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr10:4880800-4891800	Weak transcription	Primary T helper cells fromperipheralblood	blood
30	chr10:4881200-4891800	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr10:4882000-4889400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr10:4885800-4889400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr10:4885800-4890600	Weak transcription	Primary hematopoietic stem cells	blood
34	chr10:4885800-4891600	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr10:4886000-4889600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr10:4886000-4889600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr10:4886000-4889600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr10:4886000-4890800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr10:4886000-4891600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr10:4886000-4891800	Weak transcription	Aorta	Aorta
41	chr10:4886000-4891800	Weak transcription	Gastric	stomach
42	chr10:4886000-4891800	Weak transcription	Pancreas	Pancrea
43	chr10:4886000-4909800	Weak transcription	Left Ventricle	heart
44	chr10:4886200-4889800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr10:4886200-4889800	Weak transcription	Fetal Muscle Trunk	muscle
46	chr10:4886200-4889800	Weak transcription	Placenta	Placenta
47	chr10:4886200-4890400	Weak transcription	Esophagus	oesophagus
48	chr10:4886200-4891200	Weak transcription	Adipose Nuclei	Adipose
49	chr10:4886200-4891600	Weak transcription	Duodenum Mucosa	Duodenum
50	chr10:4886200-4891600	Weak transcription	Fetal Brain Female	brain

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