Variant report

Variant	rs894455
Chromosome Location	chr11:4104355-4104356
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10742194	0.94[YRI][hapmap]
rs10742229	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10767827	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs11030814	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11602757	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1442725	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1465952	1.00[CEU][hapmap];0.93[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1662163	0.87[CEU][hapmap]
rs1735053	0.87[CEU][hapmap]
rs2060822	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2289570	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2412341	0.86[CEU][hapmap];0.82[CHB][hapmap]
rs2898950	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2920137	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2920140	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2920141	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2920142	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2923947	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2923951	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2923952	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2923954	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2959060	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2959061	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2959064	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2959069	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2959071	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2959072	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2959073	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35695744	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3794051	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3794052	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4910595	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4910874	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4910881	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6578440	0.96[YRI][hapmap];0.91[AFR][1000 genomes]
rs7109811	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs7924858	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7927493	0.84[EUR][1000 genomes]
rs7930739	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7938946	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7945918	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs894457	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9735835	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9988893	1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv896896	chr11:4010409-4185595	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	esv2758253	chr11:4055945-4510188	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
3	esv2759797	chr11:4055945-4510188	Active TSS Flanking Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
4	nsv428248	chr11:4055945-4510188	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
5	nsv832053	chr11:4096527-4330263	Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Enhancers ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:4066400-4107800	Weak transcription	Small Intestine	intestine
2	chr11:4070800-4108600	Weak transcription	HSMM	muscle
3	chr11:4079000-4112600	Weak transcription	Fetal Brain Female	brain
4	chr11:4081000-4104600	Weak transcription	Colonic Mucosa	Colon
5	chr11:4082600-4107400	Weak transcription	Stomach Mucosa	stomach
6	chr11:4086200-4115200	Weak transcription	NHDF-Ad	bronchial
7	chr11:4087600-4115000	Weak transcription	HSMMtube	muscle
8	chr11:4087800-4107800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr11:4088600-4107800	Weak transcription	Right Ventricle	heart
10	chr11:4091600-4107600	Weak transcription	Psoas Muscle	Psoas
11	chr11:4093600-4112600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr11:4093800-4115000	Weak transcription	Brain Germinal Matrix	brain
13	chr11:4093800-4115200	Weak transcription	Fetal Kidney	kidney
14	chr11:4094000-4106200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr11:4094000-4107800	Weak transcription	Brain Angular Gyrus	brain
16	chr11:4094000-4108600	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr11:4094000-4108600	Weak transcription	Osteobl	bone
18	chr11:4094000-4115000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr11:4094000-4115000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr11:4094000-4115200	Weak transcription	Brain Substantia Nigra	brain
21	chr11:4095800-4109400	Weak transcription	K562	blood
22	chr11:4096000-4107600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr11:4096200-4104400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr11:4098200-4115000	Weak transcription	Hela-S3	cervix
25	chr11:4099400-4107800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr11:4099400-4111200	Strong transcription	Fetal Thymus	thymus
27	chr11:4100200-4115200	Weak transcription	Pancreatic Islets	Pancreatic Islet
28	chr11:4100400-4110400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr11:4100600-4106600	Strong transcription	Monocytes-CD14+_RO01746	blood
30	chr11:4100600-4115200	Weak transcription	NHLF	lung
31	chr11:4101000-4107400	Strong transcription	Primary T cells fromperipheralblood	blood
32	chr11:4101000-4110600	Strong transcription	Primary B cells from peripheral blood	blood
33	chr11:4101400-4106200	Strong transcription	GM12878-XiMat	blood
34	chr11:4101400-4108000	Strong transcription	Primary T cells from cord blood	blood
35	chr11:4101400-4112800	Strong transcription	Thymus	Thymus
36	chr11:4101400-4113600	Strong transcription	Primary B cells from cord blood	blood
37	chr11:4101400-4114000	Strong transcription	Primary neutrophils fromperipheralblood	blood
38	chr11:4101400-4114200	Strong transcription	Stomach Smooth Muscle	stomach
39	chr11:4101600-4106000	Strong transcription	HepG2	liver
40	chr11:4101600-4107000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr11:4101600-4113200	Strong transcription	Dnd41	blood
42	chr11:4101600-4113800	Strong transcription	Adipose Nuclei	Adipose
43	chr11:4101800-4104800	Strong transcription	Lung	lung
44	chr11:4101800-4106000	Strong transcription	Primary monocytes fromperipheralblood	blood
45	chr11:4101800-4106000	Strong transcription	Aorta	Aorta
46	chr11:4101800-4106200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
47	chr11:4101800-4106200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr11:4101800-4106400	Strong transcription	Sigmoid Colon	Sigmoid Colon
49	chr11:4101800-4108000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr11:4101800-4108400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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