Variant report

Variant	rs1135204
Chromosome Location	chr4:26757704-26757705
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 99 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs10939128	0.81[EUR][1000 genomes]
rs10939132	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10939134	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10939135	0.96[EUR][1000 genomes]
rs1129230	0.92[ASW][hapmap];0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.89[LWK][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11721891	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11724595	0.98[EUR][1000 genomes]
rs11726910	0.85[EUR][1000 genomes]
rs11733702	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs11734761	0.85[EUR][1000 genomes]
rs11931159	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11937465	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11942145	0.96[CEU][hapmap]
rs11944010	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12498454	0.95[EUR][1000 genomes]
rs12501439	0.85[EUR][1000 genomes]
rs12504472	0.95[EUR][1000 genomes]
rs12505249	0.96[CEU][hapmap];0.95[GIH][hapmap];1.00[TSI][hapmap]
rs12505393	0.87[EUR][1000 genomes]
rs12507314	0.96[CEU][hapmap];0.93[GIH][hapmap];0.98[TSI][hapmap];0.98[EUR][1000 genomes]
rs12510371	0.95[CEU][hapmap]
rs12510995	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs12640312	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs12644574	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs12647180	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs12650361	1.00[ASW][hapmap];0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap]
rs13111381	0.93[EUR][1000 genomes]
rs13112222	0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13121378	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs13123511	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13125612	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13131355	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13136955	0.82[EUR][1000 genomes]
rs13138699	0.96[CEU][hapmap];0.98[GIH][hapmap];1.00[TSI][hapmap]
rs13138712	0.96[CEU][hapmap];0.81[EUR][1000 genomes]
rs13146364	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13146615	1.00[CEU][hapmap];0.98[GIH][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs13151477	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1565303	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs1565304	0.82[EUR][1000 genomes]
rs1619573	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]
rs1641562	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1861470	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2309413	0.96[CEU][hapmap]
rs260934	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs260935	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs260937	0.84[EUR][1000 genomes]
rs260939	0.82[EUR][1000 genomes]
rs260948	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs260950	1.00[ASW][hapmap];0.96[CEU][hapmap];0.91[CHB][hapmap];0.86[CHD][hapmap];0.98[GIH][hapmap];0.80[JPT][hapmap];0.88[LWK][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap]
rs260956	0.80[EUR][1000 genomes]
rs260958	0.83[ASW][hapmap];0.96[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.81[EUR][1000 genomes]
rs260959	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs260960	0.82[EUR][1000 genomes]
rs34010107	0.95[EUR][1000 genomes]
rs34241157	0.96[EUR][1000 genomes]
rs34837351	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35124296	0.85[EUR][1000 genomes]
rs35232657	0.81[EUR][1000 genomes]
rs35588742	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35654367	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4234981	0.98[EUR][1000 genomes]
rs4321621	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs4355378	0.93[EUR][1000 genomes]
rs4365714	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4437235	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4467548	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4527463	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4588446	1.00[ASW][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4590010	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4602486	0.85[EUR][1000 genomes]
rs4692549	0.91[ASW][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.89[GIH][hapmap];0.89[JPT][hapmap];0.94[LWK][hapmap];0.95[MKK][hapmap];0.83[TSI][hapmap];0.82[YRI][hapmap]
rs4692551	0.94[EUR][1000 genomes]
rs5024581	0.84[EUR][1000 genomes]
rs55767426	0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56150091	0.98[EUR][1000 genomes]
rs58565506	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs60503601	0.95[EUR][1000 genomes]
rs60915838	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61690082	0.93[EUR][1000 genomes]
rs62299027	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62300967	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62300968	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62412678	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6448458	0.96[CEU][hapmap]
rs67655603	0.80[EUR][1000 genomes]
rs6821370	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs6858652	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7655144	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7657453	0.93[EUR][1000 genomes]
rs7658999	0.92[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7672267	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7683324	1.00[CEU][hapmap];0.91[CHB][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7687087	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs7689475	0.83[EUR][1000 genomes]
rs9790514	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9790776	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][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	nsv878768	chr4:26625185-26766687	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv470021	chr4:26721578-27067027	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:26696200-26775400	Weak transcription	Brain Germinal Matrix	brain
2	chr4:26711400-26771800	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr4:26719400-26780800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr4:26722600-26758800	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr4:26723400-26781000	Weak transcription	Rectal Smooth Muscle	rectum
6	chr4:26723600-26764200	Weak transcription	Fetal Intestine Small	intestine
7	chr4:26724000-26772000	Weak transcription	Brain Angular Gyrus	brain
8	chr4:26727400-26773800	Weak transcription	Left Ventricle	heart
9	chr4:26727400-26775400	Weak transcription	Right Ventricle	heart
10	chr4:26732600-26773800	Weak transcription	Aorta	Aorta
11	chr4:26738600-26758400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr4:26744400-26775400	Weak transcription	Colon Smooth Muscle	Colon
13	chr4:26745200-26775400	Weak transcription	Brain Anterior Caudate	brain
14	chr4:26746400-26789600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr4:26746600-26761600	Weak transcription	Dnd41	blood
16	chr4:26746800-26767000	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr4:26747600-26773800	Weak transcription	Pancreas	Pancrea
18	chr4:26747600-26775400	Weak transcription	Small Intestine	intestine
19	chr4:26748000-26780200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr4:26748200-26773600	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr4:26748200-26789000	Weak transcription	Gastric	stomach
22	chr4:26748600-26773800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr4:26748800-26766600	Weak transcription	K562	blood
24	chr4:26748800-26772200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr4:26748800-26775400	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr4:26749200-26765400	Weak transcription	Spleen	Spleen
27	chr4:26749400-26781000	Weak transcription	NHDF-Ad	bronchial
28	chr4:26749800-26762000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr4:26749800-26762000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr4:26749800-26789200	Weak transcription	Fetal Kidney	kidney
31	chr4:26750200-26761800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr4:26750600-26757800	Weak transcription	Primary T cells from cord blood	blood
33	chr4:26750600-26772800	Weak transcription	Adipose Nuclei	Adipose
34	chr4:26750600-26774200	Weak transcription	Stomach Smooth Muscle	stomach
35	chr4:26750600-26780000	Weak transcription	HMEC	breast
36	chr4:26750600-26781000	Weak transcription	Lung	lung
37	chr4:26750800-26775400	Weak transcription	Fetal Intestine Large	intestine
38	chr4:26751000-26764400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr4:26751200-26764400	Weak transcription	Primary B cells from peripheral blood	blood
40	chr4:26751200-26775800	Weak transcription	Primary B cells from cord blood	blood
41	chr4:26751400-26775400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr4:26751800-26762200	Weak transcription	Fetal Brain Female	brain
43	chr4:26751800-26762400	Weak transcription	Primary T helper cells PMA-I stimulated	--
44	chr4:26752200-26780200	Weak transcription	NHEK	skin
45	chr4:26752800-26758600	Weak transcription	Brain Substantia Nigra	brain
46	chr4:26752800-26780000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr4:26753400-26764200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
48	chr4:26753400-26774600	Weak transcription	Pancreatic Islets	Pancreatic Islet
49	chr4:26753400-26775800	Weak transcription	Primary T helper cells fromperipheralblood	blood
50	chr4:26753600-26764200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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