Variant report

Variant	rs13323092
Chromosome Location	chr3:47167336-47167337
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:47160775..47162844-chr3:47166336..47168539,2	MCF-7	breast:

Extended variants
information (count: 195 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:188)

rs_ID	r²[population]
rs1024036	0.85[YRI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1038393	1.00[EUR][1000 genomes]
rs10461017	0.91[YRI][hapmap];1.00[EUR][1000 genomes]
rs10461019	0.95[YRI][hapmap];1.00[EUR][1000 genomes]
rs10865945	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1091068	1.00[EUR][1000 genomes]
rs11130108	1.00[EUR][1000 genomes]
rs11130109	1.00[EUR][1000 genomes]
rs11130122	0.87[AMR][1000 genomes]
rs11706212	1.00[EUR][1000 genomes]
rs11708257	0.95[YRI][hapmap];1.00[EUR][1000 genomes]
rs11709693	1.00[EUR][1000 genomes]
rs11709876	0.86[YRI][hapmap];1.00[EUR][1000 genomes]
rs11713537	0.95[YRI][hapmap];1.00[EUR][1000 genomes]
rs11922925	1.00[EUR][1000 genomes]
rs11928558	0.95[YRI][hapmap];1.00[EUR][1000 genomes]
rs12330516	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12487763	1.00[EUR][1000 genomes]
rs12488371	1.00[EUR][1000 genomes]
rs12631730	1.00[YRI][hapmap]
rs13062185	1.00[EUR][1000 genomes]
rs13077134	1.00[EUR][1000 genomes]
rs13078181	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13079174	0.87[AMR][1000 genomes]
rs13079416	1.00[EUR][1000 genomes]
rs13082531	1.00[EUR][1000 genomes]
rs13084060	1.00[AMR][1000 genomes]
rs1378818	0.91[YRI][hapmap];1.00[EUR][1000 genomes]
rs1463394	0.83[YRI][hapmap];1.00[EUR][1000 genomes]
rs1466272	1.00[EUR][1000 genomes]
rs1466273	1.00[EUR][1000 genomes]
rs1473382	1.00[EUR][1000 genomes]
rs1473384	1.00[EUR][1000 genomes]
rs1473385	1.00[EUR][1000 genomes]
rs1531874	1.00[EUR][1000 genomes]
rs1563431	1.00[EUR][1000 genomes]
rs1563432	1.00[EUR][1000 genomes]
rs1814564	1.00[EUR][1000 genomes]
rs1869870	0.91[YRI][hapmap];1.00[EUR][1000 genomes]
rs1874264	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1979736	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2124509	0.91[YRI][hapmap];1.00[EUR][1000 genomes]
rs2350642	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2385863	1.00[EUR][1000 genomes]
rs2385868	0.86[YRI][hapmap];1.00[EUR][1000 genomes]
rs2385869	0.91[YRI][hapmap]
rs28735306	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2891893	0.83[YRI][hapmap]
rs295431	1.00[EUR][1000 genomes]
rs295432	0.90[YRI][hapmap];1.00[EUR][1000 genomes]
rs295434	0.95[YRI][hapmap];1.00[EUR][1000 genomes]
rs295443	0.90[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs295444	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs295445	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs295448	1.00[EUR][1000 genomes]
rs295450	1.00[EUR][1000 genomes]
rs295451	1.00[EUR][1000 genomes]
rs295453	1.00[EUR][1000 genomes]
rs295454	1.00[EUR][1000 genomes]
rs295455	1.00[EUR][1000 genomes]
rs295456	1.00[EUR][1000 genomes]
rs295457	1.00[EUR][1000 genomes]
rs295459	0.90[YRI][hapmap];1.00[EUR][1000 genomes]
rs34147581	1.00[EUR][1000 genomes]
rs35366910	1.00[EUR][1000 genomes]
rs4018904	1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4282092	0.95[YRI][hapmap];1.00[EUR][1000 genomes]
rs4289375	1.00[EUR][1000 genomes]
rs4324490	1.00[EUR][1000 genomes]
rs4373094	0.91[YRI][hapmap];1.00[EUR][1000 genomes]
rs4378998	1.00[EUR][1000 genomes]
rs4389512	1.00[EUR][1000 genomes]
rs4450857	1.00[EUR][1000 genomes]
rs4478107	0.90[YRI][hapmap];1.00[EUR][1000 genomes]
rs448018	1.00[EUR][1000 genomes]
rs4522803	1.00[EUR][1000 genomes]
rs4525902	1.00[EUR][1000 genomes]
rs4543047	0.83[YRI][hapmap];1.00[EUR][1000 genomes]
rs4682828	1.00[EUR][1000 genomes]
rs4682832	0.82[YRI][hapmap];1.00[EUR][1000 genomes]
rs4682833	1.00[EUR][1000 genomes]
rs4682834	1.00[EUR][1000 genomes]
rs4682835	1.00[EUR][1000 genomes]
rs4682836	1.00[EUR][1000 genomes]
rs4682838	1.00[EUR][1000 genomes]
rs4682841	1.00[EUR][1000 genomes]
rs4682843	1.00[EUR][1000 genomes]
rs4682846	1.00[EUR][1000 genomes]
rs4682847	1.00[EUR][1000 genomes]
rs4683277	1.00[EUR][1000 genomes]
rs4683279	1.00[EUR][1000 genomes]
rs4683282	0.86[YRI][hapmap]
rs4683283	0.85[YRI][hapmap];1.00[EUR][1000 genomes]
rs4683284	0.95[YRI][hapmap];1.00[EUR][1000 genomes]
rs4683285	0.83[YRI][hapmap];1.00[EUR][1000 genomes]
rs4683286	1.00[EUR][1000 genomes]
rs4683288	1.00[EUR][1000 genomes]
rs4683289	1.00[EUR][1000 genomes]
rs4683290	0.85[YRI][hapmap];1.00[EUR][1000 genomes]
rs4683291	0.90[YRI][hapmap];1.00[EUR][1000 genomes]
rs4683292	1.00[EUR][1000 genomes]
rs4683293	1.00[EUR][1000 genomes]
rs4683303	1.00[EUR][1000 genomes]
rs6442041	1.00[EUR][1000 genomes]
rs6442042	1.00[EUR][1000 genomes]
rs6442043	1.00[EUR][1000 genomes]
rs6442044	0.83[YRI][hapmap];1.00[EUR][1000 genomes]
rs6442047	0.83[YRI][hapmap];1.00[EUR][1000 genomes]
rs6442048	1.00[EUR][1000 genomes]
rs6442062	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6442063	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6442066	1.00[EUR][1000 genomes]
rs648226	1.00[EUR][1000 genomes]
rs6766676	0.86[YRI][hapmap];1.00[EUR][1000 genomes]
rs6767868	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6768169	1.00[EUR][1000 genomes]
rs6772449	1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6775797	1.00[EUR][1000 genomes]
rs6778673	0.90[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6778687	0.95[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6780994	1.00[EUR][1000 genomes]
rs6785462	1.00[EUR][1000 genomes]
rs6787210	0.95[YRI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6788978	1.00[EUR][1000 genomes]
rs6789730	1.00[EUR][1000 genomes]
rs6804732	1.00[EUR][1000 genomes]
rs6806521	0.85[YRI][hapmap];1.00[EUR][1000 genomes]
rs6808052	1.00[EUR][1000 genomes]
rs6808117	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6808629	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6809904	1.00[EUR][1000 genomes]
rs73831482	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7615774	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7621530	1.00[EUR][1000 genomes]
rs7624549	0.83[YRI][hapmap];1.00[EUR][1000 genomes]
rs7625011	0.82[YRI][hapmap]
rs7630154	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7630904	1.00[EUR][1000 genomes]
rs7638549	0.95[YRI][hapmap];1.00[EUR][1000 genomes]
rs7639121	0.95[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7643150	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7643181	1.00[AMR][1000 genomes]
rs7643868	1.00[EUR][1000 genomes]
rs7644382	1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7646076	0.83[YRI][hapmap];1.00[EUR][1000 genomes]
rs7649413	1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7649941	0.85[YRI][hapmap];1.00[EUR][1000 genomes]
rs7650142	1.00[EUR][1000 genomes]
rs7652492	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs807930	1.00[EUR][1000 genomes]
rs807933	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs900688	1.00[EUR][1000 genomes]
rs900689	1.00[EUR][1000 genomes]
rs900694	1.00[EUR][1000 genomes]
rs903538	0.90[YRI][hapmap];1.00[AMR][1000 genomes]
rs924009	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs936173	1.00[EUR][1000 genomes]
rs936177	1.00[EUR][1000 genomes]
rs936178	1.00[EUR][1000 genomes]
rs936179	1.00[EUR][1000 genomes]
rs936180	1.00[EUR][1000 genomes]
rs936181	0.82[YRI][hapmap];1.00[EUR][1000 genomes]
rs936182	1.00[EUR][1000 genomes]
rs936185	1.00[EUR][1000 genomes]
rs936186	0.96[YRI][hapmap];1.00[EUR][1000 genomes]
rs9810881	1.00[EUR][1000 genomes]
rs9812407	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9819344	1.00[EUR][1000 genomes]
rs9819475	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9823480	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9823599	0.85[AMR][1000 genomes]
rs9826488	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9827293	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9828124	1.00[EUR][1000 genomes]
rs9828473	0.90[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9833500	1.00[EUR][1000 genomes]
rs9836801	1.00[EUR][1000 genomes]
rs9850151	1.00[EUR][1000 genomes]
rs9852167	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9861247	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9861265	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9862711	1.00[EUR][1000 genomes]
rs9869489	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9873037	0.85[AFR][1000 genomes]
rs9878813	1.00[EUR][1000 genomes]
rs9883152	1.00[EUR][1000 genomes]
rs9883909	1.00[EUR][1000 genomes]
rs9990284	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3461834	chr3:46977730-47173228	Active TSS Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	esv3461835	chr3:46977822-47173168	Enhancers Genic enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	esv3461836	chr3:46977822-47173168	Weak transcription Active TSS Genic enhancers Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	nsv876756	chr3:47002931-47586514	Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
5	nsv1007714	chr3:47084387-47331570	Transcr. at gene 5' and 3' Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
6	nsv1002970	chr3:47120592-47170607	Strong transcription Genic enhancers Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
7	nsv590210	chr3:47126543-47214122	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:47126800-47168200	Strong transcription	Monocytes-CD14+_RO01746	blood
2	chr3:47140000-47175600	Weak transcription	Small Intestine	intestine
3	chr3:47144200-47170800	Weak transcription	Brain Angular Gyrus	brain
4	chr3:47145800-47175000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr3:47151200-47167400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr3:47155200-47172600	Weak transcription	Colonic Mucosa	Colon
7	chr3:47155400-47183800	Weak transcription	Esophagus	oesophagus
8	chr3:47160600-47167800	Strong transcription	Fetal Thymus	thymus
9	chr3:47160800-47167400	Strong transcription	Primary B cells from peripheral blood	blood
10	chr3:47161000-47167400	Strong transcription	Liver	Liver
11	chr3:47161000-47167800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr3:47161000-47168200	Strong transcription	Dnd41	blood
13	chr3:47161200-47167800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr3:47161600-47168600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr3:47162400-47167400	Strong transcription	Primary T cells fromperipheralblood	blood
16	chr3:47162400-47167600	Strong transcription	Primary T helper cells fromperipheralblood	blood
17	chr3:47162600-47170000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr3:47163000-47167400	Strong transcription	Primary B cells from cord blood	blood
19	chr3:47163000-47168000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr3:47163000-47169800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
21	chr3:47164000-47167800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr3:47164000-47176000	Weak transcription	Right Atrium	heart
23	chr3:47164200-47168000	Weak transcription	Stomach Mucosa	stomach
24	chr3:47164600-47167800	Strong transcription	Fetal Intestine Small	intestine
25	chr3:47164800-47167800	Strong transcription	Fetal Stomach	stomach
26	chr3:47165000-47172000	Weak transcription	Fetal Heart	heart
27	chr3:47165600-47175000	Weak transcription	Psoas Muscle	Psoas
28	chr3:47165800-47167400	Weak transcription	HSMMtube	muscle
29	chr3:47165800-47168000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr3:47165800-47169400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr3:47165800-47169600	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr3:47165800-47169600	Weak transcription	Gastric	stomach
33	chr3:47165800-47169600	Weak transcription	Pancreas	Pancrea
34	chr3:47165800-47170400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
35	chr3:47165800-47171400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
36	chr3:47165800-47171800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
37	chr3:47165800-47175000	Weak transcription	Left Ventricle	heart
38	chr3:47165800-47175200	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr3:47165800-47175200	Weak transcription	HUVEC	blood vessel
40	chr3:47165800-47175600	Weak transcription	Pancreatic Islets	Pancreatic Islet
41	chr3:47165800-47175600	Weak transcription	Right Ventricle	heart
42	chr3:47165800-47176000	Weak transcription	Spleen	Spleen
43	chr3:47165800-47177200	Weak transcription	Brain Hippocampus Middle	brain
44	chr3:47165800-47187000	Weak transcription	Stomach Smooth Muscle	stomach
45	chr3:47165800-47191000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr3:47165800-47197000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr3:47166000-47167400	Strong transcription	K562	blood
48	chr3:47166000-47167600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr3:47166000-47167800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr3:47166000-47168000	Weak transcription	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links