Variant report

Variant	rs16923259
Chromosome Location	chr10:23732302-23732303
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:23731583..23733567-chr10:23742543..23744623,2	MCF-7	breast:
2	chr10:23732163..23734973-chr10:23736467..23739152,3	K562	blood:
3	chr10:23728096..23730469-chr10:23730500..23732412,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165312	Chromatin interaction

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs10828460	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10828461	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10828473	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11013472	1.00[EUR][1000 genomes]
rs11013473	0.80[ASN][1000 genomes]
rs11013474	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11013476	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11013478	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11013479	0.86[JPT][hapmap];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11013480	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11013481	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11013482	1.00[EUR][1000 genomes]
rs11013483	1.00[EUR][1000 genomes]
rs11013484	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11013491	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11013492	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11013494	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11013495	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11013496	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11013497	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11013498	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11013527	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11013539	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11013544	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11013556	0.85[AMR][1000 genomes]
rs11013558	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11013561	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11527594	1.00[EUR][1000 genomes]
rs12217320	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12219829	0.95[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12254101	1.00[ASN][1000 genomes]
rs12569512	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12571102	1.00[EUR][1000 genomes]
rs12571351	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12571384	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12572169	0.88[JPT][hapmap];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1398027	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1553905	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs16923233	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16923277	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1995981	0.86[ASN][1000 genomes]
rs2089876	1.00[EUR][1000 genomes]
rs2089878	1.00[EUR][1000 genomes]
rs2089879	0.88[JPT][hapmap];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2089880	0.93[JPT][hapmap];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3898626	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4442437	0.88[JPT][hapmap];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4747470	1.00[EUR][1000 genomes]
rs4747471	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4747474	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4747475	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4747476	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4748885	0.92[ASN][1000 genomes]
rs4748886	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4748887	0.81[ASN][1000 genomes]
rs4748889	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4748891	1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4748895	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4748904	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57566783	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58056630	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs58305149	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58604095	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58614955	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59547906	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61412542	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6482276	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7067635	1.00[EUR][1000 genomes]
rs7079349	0.88[JPT][hapmap]
rs7079490	0.88[JPT][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7079866	1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[ASN][1000 genomes]
rs7080700	0.88[JPT][hapmap];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7083306	0.88[JPT][hapmap];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7084431	0.88[JPT][hapmap];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7087230	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7096353	0.88[JPT][hapmap];0.81[ASN][1000 genomes]
rs7097072	0.88[JPT][hapmap];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7098076	0.88[JPT][hapmap];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7100463	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7100518	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73602555	1.00[EUR][1000 genomes]
rs73602556	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs74122431	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs74122432	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs74122435	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs74122436	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs74122437	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7905070	0.98[ASN][1000 genomes]
rs7919581	0.88[JPT][hapmap];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs867892	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs945778	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9633627	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9633648	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[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	nsv825305	chr10:23698620-23740919	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv975033	chr10:23726218-23738848	Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:23727400-23732800	Active TSS	Right Ventricle	heart
2	chr10:23729400-23732400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
3	chr10:23729800-23732600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr10:23729800-23734400	Weak transcription	K562	blood
5	chr10:23729800-23736400	Weak transcription	Gastric	stomach
6	chr10:23729800-23738400	Weak transcription	Esophagus	oesophagus
7	chr10:23729800-23738400	Weak transcription	Lung	lung
8	chr10:23730000-23732400	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr10:23730000-23735800	Weak transcription	HUVEC	blood vessel
10	chr10:23730200-23733000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr10:23730400-23734800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
12	chr10:23730800-23734400	Weak transcription	Stomach Mucosa	stomach
13	chr10:23730800-23738000	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr10:23731000-23732400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
15	chr10:23731000-23732400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
16	chr10:23731000-23732400	Enhancers	NHDF-Ad	bronchial
17	chr10:23731000-23732600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr10:23731000-23733000	Weak transcription	HepG2	liver
19	chr10:23731000-23733200	Enhancers	Primary T helper cells fromperipheralblood	blood
20	chr10:23731000-23735800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr10:23731000-23738600	Weak transcription	Placenta	Placenta
22	chr10:23731200-23732400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr10:23731200-23733000	Enhancers	Colon Smooth Muscle	Colon
24	chr10:23731200-23734200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr10:23731200-23738600	Weak transcription	Rectal Mucosa Donor 29	rectum
26	chr10:23731400-23732400	Enhancers	NHLF	lung
27	chr10:23731600-23732400	Enhancers	Primary T cells fromperipheralblood	blood
28	chr10:23731600-23732400	Weak transcription	Fetal Stomach	stomach
29	chr10:23731600-23732400	Enhancers	NH-A	brain
30	chr10:23731600-23732600	Enhancers	Liver	Liver
31	chr10:23731600-23732600	Enhancers	Pancreas	Pancrea
32	chr10:23731600-23732600	Enhancers	Osteobl	bone
33	chr10:23731600-23732800	Enhancers	Spleen	Spleen
34	chr10:23731600-23733000	Genic enhancers	Primary B cells from peripheral blood	blood
35	chr10:23731600-23733000	Enhancers	Psoas Muscle	Psoas
36	chr10:23731600-23737400	Weak transcription	Duodenum Mucosa	Duodenum
37	chr10:23731600-23750600	Weak transcription	HSMMtube	muscle
38	chr10:23731800-23732400	Transcr. at gene 5' and 3'	Primary T helper cells PMA-I stimulated	--
39	chr10:23731800-23732400	Weak transcription	Fetal Intestine Small	intestine
40	chr10:23731800-23732600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr10:23731800-23732600	Genic enhancers	Dnd41	blood
42	chr10:23731800-23732800	Genic enhancers	Adipose Nuclei	Adipose
43	chr10:23731800-23733000	Genic enhancers	Left Ventricle	heart
44	chr10:23731800-23733200	Strong transcription	Fetal Lung	lung
45	chr10:23731800-23734400	Weak transcription	Small Intestine	intestine
46	chr10:23731800-23736200	Weak transcription	Thymus	Thymus
47	chr10:23731800-23738400	Weak transcription	Aorta	Aorta
48	chr10:23731800-23738400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr10:23731800-23740200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr10:23731800-23747800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links