Variant report

Variant	rs10458900
Chromosome Location	chr11:4111595-4111596
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:4109002..4112620-chr11:4113600..4116906,4	MCF-7	breast:
2	chr11:3833867..3836561-chr11:4110192..4112023,2	K562	blood:
3	chr11:4104830..4107484-chr11:4111257..4112861,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000167323	Chromatin interaction
ENSG00000167325	Chromatin interaction

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10430939	0.88[CHB][hapmap]
rs10500591	1.00[CEU][hapmap];0.88[CHB][hapmap];0.80[ASN][1000 genomes]
rs10500592	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10500593	1.00[AFR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11030286	0.80[ASN][1000 genomes]
rs11030326	0.82[CEU][hapmap];0.88[CHB][hapmap];1.00[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs11030327	0.88[CHB][hapmap];0.81[ASN][1000 genomes]
rs11030366	1.00[CEU][hapmap];0.88[CHB][hapmap]
rs11030417	0.80[ASN][1000 genomes]
rs11030418	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[ASN][1000 genomes]
rs11030453	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs11030478	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[ASN][1000 genomes]
rs11030479	0.84[ASN][1000 genomes]
rs11030481	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[ASN][1000 genomes]
rs11030484	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[ASN][1000 genomes]
rs11030485	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[ASN][1000 genomes]
rs11030486	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[ASN][1000 genomes]
rs11030697	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11030796	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11525342	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11529865	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12222250	0.88[CHB][hapmap];0.80[ASN][1000 genomes]
rs1372803	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16929410	0.94[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs16929438	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16929467	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16929477	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16929480	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16929488	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16929492	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16929529	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[ASN][1000 genomes]
rs16929531	1.00[CEU][hapmap];0.87[CHB][hapmap];0.84[ASN][1000 genomes]
rs16929538	1.00[CEU][hapmap];0.84[CHB][hapmap];0.84[ASN][1000 genomes]
rs16929540	1.00[CEU][hapmap];0.88[CHB][hapmap]
rs16929542	1.00[CEU][hapmap];0.88[CHB][hapmap];0.81[ASN][1000 genomes]
rs16929546	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[ASN][1000 genomes]
rs16929611	1.00[CEU][hapmap];0.88[CHB][hapmap];0.81[ASN][1000 genomes]
rs16929616	0.82[CEU][hapmap];0.88[CHB][hapmap];0.80[ASN][1000 genomes]
rs16929653	0.82[CEU][hapmap];0.82[CHB][hapmap]
rs1822286	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1899478	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2167563	1.00[CEU][hapmap];0.88[CHB][hapmap];0.80[ASN][1000 genomes]
rs2284448	0.81[ASN][1000 genomes]
rs2284449	0.82[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs3750994	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4910878	1.00[CEU][hapmap];1.00[CHB][hapmap];0.80[EUR][1000 genomes]
rs55679086	0.84[ASN][1000 genomes]
rs55978228	0.84[ASN][1000 genomes]
rs56126231	0.80[ASN][1000 genomes]
rs56140937	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59242983	0.87[ASN][1000 genomes]
rs61897163	0.80[ASN][1000 genomes]
rs61897164	0.80[ASN][1000 genomes]
rs61897166	0.81[ASN][1000 genomes]
rs61897170	0.81[ASN][1000 genomes]
rs61897171	0.81[ASN][1000 genomes]
rs61897194	0.81[ASN][1000 genomes]
rs61897195	0.80[ASN][1000 genomes]
rs61897201	1.00[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs61897202	0.84[ASN][1000 genomes]
rs61897206	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61897234	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61897237	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61897238	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61897254	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61897257	0.81[ASN][1000 genomes]
rs61899662	0.87[AMR][1000 genomes]
rs6578423	1.00[CEU][hapmap];0.88[CHB][hapmap];0.81[ASN][1000 genomes]
rs720106	0.82[CHB][hapmap]
rs723779	1.00[CEU][hapmap];0.88[CHB][hapmap]
rs72851736	0.84[ASN][1000 genomes]
rs750526	0.88[CHB][hapmap];0.80[ASN][1000 genomes]
rs7928117	1.00[CEU][hapmap];0.88[CHB][hapmap]
rs7934581	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7941743	1.00[CEU][hapmap];0.88[CHB][hapmap];0.81[ASN][1000 genomes]
rs894454	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:4079000-4112600	Weak transcription	Fetal Brain Female	brain
2	chr11:4086200-4115200	Weak transcription	NHDF-Ad	bronchial
3	chr11:4087600-4115000	Weak transcription	HSMMtube	muscle
4	chr11:4093600-4112600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr11:4093800-4115000	Weak transcription	Brain Germinal Matrix	brain
6	chr11:4093800-4115200	Weak transcription	Fetal Kidney	kidney
7	chr11:4094000-4115000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr11:4094000-4115000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr11:4094000-4115200	Weak transcription	Brain Substantia Nigra	brain
10	chr11:4098200-4115000	Weak transcription	Hela-S3	cervix
11	chr11:4100200-4115200	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr11:4100600-4115200	Weak transcription	NHLF	lung
13	chr11:4101400-4112800	Strong transcription	Thymus	Thymus
14	chr11:4101400-4113600	Strong transcription	Primary B cells from cord blood	blood
15	chr11:4101400-4114000	Strong transcription	Primary neutrophils fromperipheralblood	blood
16	chr11:4101400-4114200	Strong transcription	Stomach Smooth Muscle	stomach
17	chr11:4101600-4113200	Strong transcription	Dnd41	blood
18	chr11:4101600-4113800	Strong transcription	Adipose Nuclei	Adipose
19	chr11:4101800-4112000	Strong transcription	Rectal Mucosa Donor 29	rectum
20	chr11:4101800-4113400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr11:4101800-4114000	Strong transcription	Fetal Stomach	stomach
22	chr11:4102000-4113200	Strong transcription	Liver	Liver
23	chr11:4102200-4114000	Strong transcription	Spleen	Spleen
24	chr11:4102400-4113400	Strong transcription	Skeletal Muscle Female	skeletal muscle
25	chr11:4102400-4115200	Weak transcription	Fetal Brain Male	brain
26	chr11:4103000-4115200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr11:4103200-4115200	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr11:4103400-4112800	Strong transcription	Fetal Muscle Trunk	muscle
29	chr11:4103400-4114000	Strong transcription	Skeletal Muscle Male	skeletal muscle
30	chr11:4104200-4113800	Strong transcription	Fetal Muscle Leg	muscle
31	chr11:4104800-4112600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr11:4105800-4115200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr11:4106200-4114200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
34	chr11:4106600-4115400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr11:4107000-4112200	Strong transcription	GM12878-XiMat	blood
36	chr11:4107200-4112600	Strong transcription	Monocytes-CD14+_RO01746	blood
37	chr11:4107400-4112000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr11:4107400-4112800	Strong transcription	Primary monocytes fromperipheralblood	blood
39	chr11:4107600-4113000	Strong transcription	Primary hematopoietic stem cells	blood
40	chr11:4107600-4113200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr11:4107800-4112000	Strong transcription	Fetal Lung	lung
42	chr11:4108000-4112400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr11:4108200-4112200	Weak transcription	Right Ventricle	heart
44	chr11:4108200-4112400	Weak transcription	Fetal Intestine Small	intestine
45	chr11:4108200-4112600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr11:4108200-4115000	Weak transcription	NHEK	skin
47	chr11:4108200-4115200	Weak transcription	Brain Hippocampus Middle	brain
48	chr11:4108200-4115200	Weak transcription	Brain Inferior Temporal Lobe	brain
49	chr11:4108200-4115400	Weak transcription	Small Intestine	intestine
50	chr11:4108400-4112400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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