Variant report

Variant	rs10017940
Chromosome Location	chr4:186641789-186641790
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10011292	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs10015763	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10016122	0.87[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10017672	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10019263	0.87[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11132336	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11132337	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11132338	0.87[CEU][hapmap];0.89[EUR][1000 genomes]
rs11132339	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1124024	0.87[CEU][hapmap]
rs11725010	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11733264	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11932587	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11937510	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11941721	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12640689	0.86[ASN][1000 genomes]
rs12643220	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12649216	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13119888	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1540711	0.87[EUR][1000 genomes]
rs1566350	0.87[CEU][hapmap];0.87[EUR][1000 genomes]
rs1566351	0.86[ASN][1000 genomes]
rs1566352	0.84[ASN][1000 genomes]
rs1566353	0.85[ASN][1000 genomes]
rs2030142	0.86[YRI][hapmap]
rs2030143	0.87[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2030144	0.87[CEU][hapmap];0.87[EUR][1000 genomes]
rs2047499	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4407549	0.87[CEU][hapmap]
rs4861676	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4861677	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4861678	0.86[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs4861679	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4862561	0.87[CEU][hapmap]
rs4862565	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4862566	0.88[CEU][hapmap];0.89[EUR][1000 genomes]
rs4862567	0.88[ASN][1000 genomes]
rs6812761	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6820044	0.87[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6825114	0.87[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6825669	0.87[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6826210	0.87[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6836237	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6837079	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7340885	0.87[CEU][hapmap]
rs7673413	0.87[ASN][1000 genomes]
rs7688359	0.87[CEU][hapmap]
rs7689859	0.87[ASN][1000 genomes]
rs7690098	0.86[ASN][1000 genomes]
rs7694063	0.86[EUR][1000 genomes]
rs7695346	0.85[ASN][1000 genomes]
rs904451	0.87[CHB][hapmap];0.84[JPT][hapmap]
rs950590	0.87[CEU][hapmap]
rs9991426	0.85[ASN][1000 genomes]
rs9991548	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432684	chr4:186412851-186742851	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1028146	chr4:186503899-187338335	Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv1020731	chr4:186512433-186724031	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1023917	chr4:186533075-186997806	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS 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	7 gene(s)	inside rSNPs	diseases
5	nsv537420	chr4:186533075-186997806	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv830171	chr4:186610113-186789271	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv1023412	chr4:186613289-186707428	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv537421	chr4:186613289-186707428	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv427702	chr4:186618031-186782377	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:186622000-186651800	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr4:186630000-186651600	Weak transcription	HSMM	muscle
3	chr4:186633000-186642000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr4:186634000-186642400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr4:186634400-186645200	Enhancers	Liver	Liver
6	chr4:186634400-186651800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr4:186637200-186642800	Enhancers	Left Ventricle	heart
8	chr4:186638000-186645000	Weak transcription	Right Atrium	heart
9	chr4:186638200-186642400	Weak transcription	Fetal Brain Female	brain
10	chr4:186638400-186648200	Weak transcription	Brain Angular Gyrus	brain
11	chr4:186638400-186648200	Weak transcription	Fetal Muscle Leg	muscle
12	chr4:186638600-186651600	Weak transcription	Psoas Muscle	Psoas
13	chr4:186639000-186642400	Enhancers	HepG2	liver
14	chr4:186639000-186642600	Weak transcription	HSMMtube	muscle
15	chr4:186639000-186644000	Weak transcription	HUVEC	blood vessel
16	chr4:186639000-186651000	Enhancers	Fetal Heart	heart
17	chr4:186639600-186642600	Enhancers	Hela-S3	cervix
18	chr4:186639600-186645800	Enhancers	Rectal Smooth Muscle	rectum
19	chr4:186640000-186643800	Enhancers	Fetal Brain Male	brain
20	chr4:186640200-186642600	Weak transcription	Colon Smooth Muscle	Colon
21	chr4:186640200-186642600	Weak transcription	Fetal Lung	lung
22	chr4:186640400-186641800	Weak transcription	Stomach Mucosa	stomach
23	chr4:186640600-186642000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr4:186640800-186642000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr4:186640800-186653600	Weak transcription	Fetal Intestine Large	intestine
26	chr4:186641000-186641800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr4:186641000-186641800	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr4:186641000-186642400	Enhancers	Pancreas	Pancrea
29	chr4:186641000-186642600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr4:186641000-186642600	Weak transcription	Fetal Intestine Small	intestine
31	chr4:186641000-186642800	Enhancers	Lung	lung
32	chr4:186641000-186645400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr4:186641200-186642200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr4:186641200-186642600	Weak transcription	Pancreatic Islets	Pancreatic Islet
35	chr4:186641200-186642800	Enhancers	Gastric	stomach
36	chr4:186641200-186643000	Weak transcription	Fetal Kidney	kidney
37	chr4:186641400-186641800	Weak transcription	Stomach Smooth Muscle	stomach
38	chr4:186641400-186647200	Weak transcription	Aorta	Aorta
39	chr4:186641400-186651600	Weak transcription	Right Ventricle	heart
40	chr4:186641600-186642200	Enhancers	Spleen	Spleen
41	chr4:186641600-186642600	Enhancers	Ovary	ovary
42	chr4:186641600-186646800	Enhancers	Fetal Stomach	stomach

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