Variant report

Variant	rs10019627
Chromosome Location	chr4:102160271-102160272
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:102160218..102162445-chr4:102172833..102174744,2	MCF-7	breast:
2	chr4:102160185..102162407-chr4:102162832..102166466,3	MCF-7	breast:
3	chr4:102152625..102154984-chr4:102158702..102160771,2	MCF-7	breast:
4	chr4:102149127..102151835-chr4:102160270..102161845,2	MCF-7	breast:
5	chr4:102158963..102160563-chr4:102166791..102168872,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10004830	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10015480	1.00[EUR][1000 genomes]
rs10027301	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17030915	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17030959	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17030989	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28379119	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28421266	1.00[EUR][1000 genomes]
rs28464050	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28491829	1.00[EUR][1000 genomes]
rs28534411	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28542998	1.00[EUR][1000 genomes]
rs28553282	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28614035	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28638143	1.00[EUR][1000 genomes]
rs28640942	1.00[EUR][1000 genomes]
rs28675750	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28723066	1.00[EUR][1000 genomes]
rs58084948	1.00[EUR][1000 genomes]
rs58598913	1.00[EUR][1000 genomes]
rs58898502	1.00[EUR][1000 genomes]
rs6811228	1.00[EUR][1000 genomes]
rs72919782	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs72919785	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9998913	0.81[YRI][hapmap];1.00[EUR][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	nsv931418	chr4:101500167-102443207	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv999741	chr4:102009017-102454115	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
3	nsv537199	chr4:102009017-102454115	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1004766	chr4:102009017-102713765	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
5	nsv537200	chr4:102009017-102713765	Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1011351	chr4:102056024-102450302	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 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	chr4:102146400-102162000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr4:102152800-102165600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr4:102153000-102165600	Weak transcription	Brain Anterior Caudate	brain
4	chr4:102153000-102165600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr4:102157400-102165400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr4:102157800-102179600	Weak transcription	Primary B cells from cord blood	blood
7	chr4:102158000-102160400	Enhancers	Pancreatic Islets	Pancreatic Islet
8	chr4:102158400-102161000	Enhancers	Skeletal Muscle Female	skeletal muscle
9	chr4:102159000-102160800	Enhancers	Adipose Nuclei	Adipose
10	chr4:102159000-102161000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
11	chr4:102159000-102161000	Enhancers	NHLF	lung
12	chr4:102159000-102161200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr4:102159200-102162000	Weak transcription	Ovary	ovary
14	chr4:102159200-102162200	Weak transcription	Duodenum Mucosa	Duodenum
15	chr4:102159200-102163000	Weak transcription	Stomach Mucosa	stomach
16	chr4:102159200-102164000	Weak transcription	Gastric	stomach
17	chr4:102159200-102164000	Weak transcription	Pancreas	Pancrea
18	chr4:102159200-102164000	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr4:102159200-102165600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr4:102159200-102165600	Weak transcription	Brain Angular Gyrus	brain
21	chr4:102159200-102165600	Weak transcription	Esophagus	oesophagus
22	chr4:102159200-102179800	Weak transcription	Psoas Muscle	Psoas
23	chr4:102159400-102160400	Weak transcription	Spleen	Spleen
24	chr4:102159400-102160600	Weak transcription	Primary B cells from peripheral blood	blood
25	chr4:102159400-102161000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr4:102159600-102160400	Enhancers	HMEC	breast
27	chr4:102159600-102160600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr4:102159600-102161000	Enhancers	Muscle Satellite Cultured Cells	--
29	chr4:102159600-102161000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr4:102159600-102161000	Enhancers	Hela-S3	cervix
31	chr4:102159600-102161200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr4:102159600-102161200	Enhancers	NHDF-Ad	bronchial
33	chr4:102159600-102161200	Enhancers	Osteobl	bone
34	chr4:102159600-102161400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr4:102159800-102160400	Enhancers	Primary monocytes fromperipheralblood	blood
36	chr4:102159800-102160400	Enhancers	Small Intestine	intestine
37	chr4:102159800-102160400	Flanking Active TSS	A549	lung
38	chr4:102159800-102160400	Enhancers	NH-A	brain
39	chr4:102159800-102160400	Flanking Active TSS	NHEK	skin
40	chr4:102159800-102160600	Enhancers	Primary T cells from cord blood	blood
41	chr4:102159800-102160600	Enhancers	Primary hematopoietic stem cells	blood
42	chr4:102159800-102160600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr4:102159800-102160600	Enhancers	HUVEC	blood vessel
44	chr4:102159800-102160600	Enhancers	Monocytes-CD14+_RO01746	blood
45	chr4:102159800-102160800	Enhancers	Primary hematopoietic stem cells short term culture	blood
46	chr4:102159800-102160800	Enhancers	Fetal Kidney	kidney
47	chr4:102159800-102161000	Enhancers	Colon Smooth Muscle	Colon
48	chr4:102159800-102161000	Enhancers	Duodenum Smooth Muscle	Duodenum
49	chr4:102159800-102161200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr4:102159800-102161400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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