Variant report

Variant	rs653779
Chromosome Location	chr11:86218824-86218825
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:86213427..86216167-chr11:86218701..86220903,2	MCF-7	breast:
2	chr11:86216870..86219202-chr11:86219974..86222344,3	MCF-7	breast:
3	chr11:86216398..86218909-chr11:86219369..86221994,2	MCF-7	breast:
4	chr11:86209967..86211893-chr11:86216678..86219275,2	K562	blood:

Extended variants
information (count: 103 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:100)

rs_ID	r²[population]
rs10431169	1.00[CEU][hapmap];0.86[CHB][hapmap]
rs10501619	1.00[CEU][hapmap]
rs10501620	1.00[CEU][hapmap];0.86[CHB][hapmap];0.88[CHD][hapmap]
rs10501621	1.00[CEU][hapmap];0.86[CHB][hapmap];0.84[JPT][hapmap]
rs10898480	0.82[CEU][hapmap];0.82[CHB][hapmap]
rs147045	0.90[CHB][hapmap]
rs1791443	0.88[ASN][1000 genomes]
rs1841066	0.95[CHB][hapmap];0.82[CHD][hapmap];0.82[ASN][1000 genomes]
rs2279046	0.90[CHB][hapmap];0.91[CHD][hapmap];0.82[ASN][1000 genomes]
rs2446226	0.82[ASN][1000 genomes]
rs2446228	0.90[CHB][hapmap];0.94[CHD][hapmap];0.88[ASN][1000 genomes]
rs2446229	0.95[CHB][hapmap];0.94[CHD][hapmap];0.84[ASN][1000 genomes]
rs2446231	0.86[ASN][1000 genomes]
rs2511090	0.86[ASN][1000 genomes]
rs3781812	0.86[CHB][hapmap];0.91[CHD][hapmap];0.84[JPT][hapmap]
rs498981	0.95[CHB][hapmap];0.91[CHD][hapmap];0.85[ASN][1000 genomes]
rs501362	0.83[ASN][1000 genomes]
rs502749	0.85[ASN][1000 genomes]
rs503583	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs509870	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs511884	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs525764	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs531908	0.83[ASN][1000 genomes]
rs535652	0.82[ASW][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.82[MKK][hapmap];0.90[YRI][hapmap];0.97[ASN][1000 genomes]
rs553351	0.95[CHB][hapmap];0.88[CHD][hapmap];0.87[ASN][1000 genomes]
rs561237	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs582976	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs584068	0.85[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs585527	0.84[ASN][1000 genomes]
rs588287	0.82[ASW][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.80[LWK][hapmap];0.91[MKK][hapmap];0.90[YRI][hapmap];0.97[ASN][1000 genomes]
rs589174	0.95[CHB][hapmap]
rs589368	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs590401	1.00[CEU][hapmap];0.95[CHB][hapmap];0.84[JPT][hapmap]
rs593853	0.95[CHB][hapmap];0.84[ASN][1000 genomes]
rs594106	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs596056	0.90[CHB][hapmap];0.86[ASN][1000 genomes]
rs597296	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs597793	0.84[ASN][1000 genomes]
rs598187	0.84[ASN][1000 genomes]
rs601300	0.91[CHB][hapmap];0.88[CHD][hapmap];0.82[GIH][hapmap];0.92[JPT][hapmap];0.83[ASN][1000 genomes]
rs601824	0.95[CHB][hapmap];0.86[ASN][1000 genomes]
rs603890	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs605251	0.95[CHB][hapmap];0.94[CHD][hapmap];0.92[JPT][hapmap]
rs605618	0.90[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs606546	0.82[ASN][1000 genomes]
rs609848	0.95[CHB][hapmap];0.94[CHD][hapmap];0.86[ASN][1000 genomes]
rs610842	0.95[CHB][hapmap];0.94[CHD][hapmap];0.89[ASN][1000 genomes]
rs612163	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs613412	0.86[ASN][1000 genomes]
rs616018	0.95[CHB][hapmap];0.91[CHD][hapmap];0.85[ASN][1000 genomes]
rs618513	0.95[CHB][hapmap];0.97[CHD][hapmap];0.92[JPT][hapmap]
rs61904415	0.97[ASN][1000 genomes]
rs619195	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs619472	0.89[ASN][1000 genomes]
rs623478	0.95[CHB][hapmap];0.94[CHD][hapmap];0.86[ASN][1000 genomes]
rs624236	0.86[ASN][1000 genomes]
rs624843	0.95[CHB][hapmap];0.89[ASN][1000 genomes]
rs624870	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs625925	0.89[CHB][hapmap];0.86[ASN][1000 genomes]
rs628406	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.97[ASN][1000 genomes]
rs628449	0.83[ASN][1000 genomes]
rs630438	0.88[ASN][1000 genomes]
rs632538	0.82[ASN][1000 genomes]
rs634509	0.90[CHB][hapmap];0.91[CHD][hapmap];0.82[ASN][1000 genomes]
rs635934	0.86[ASN][1000 genomes]
rs636485	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs638041	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs638135	0.91[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs640310	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs642278	0.82[ASN][1000 genomes]
rs643950	0.83[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs644086	0.81[CHB][hapmap];0.91[CHD][hapmap];0.87[ASN][1000 genomes]
rs646691	0.86[ASN][1000 genomes]
rs646798	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs648798	1.00[ASW][hapmap];0.82[CEU][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap];0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs651089	0.95[CHB][hapmap];0.94[CHD][hapmap];0.92[JPT][hapmap]
rs655868	0.96[ASN][1000 genomes]
rs655934	0.95[CHB][hapmap];0.94[CHD][hapmap];0.85[ASN][1000 genomes]
rs658166	0.86[ASN][1000 genomes]
rs659405	0.95[CHB][hapmap];0.81[ASN][1000 genomes]
rs659700	0.87[ASN][1000 genomes]
rs660893	0.80[ASN][1000 genomes]
rs661083	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs661972	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs662361	0.90[CHB][hapmap];0.91[CHD][hapmap];0.82[ASN][1000 genomes]
rs663262	0.82[CEU][hapmap];0.95[CHB][hapmap];0.92[JPT][hapmap];0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs668270	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs668272	0.95[CHB][hapmap];0.91[CHD][hapmap]
rs670602	0.88[ASN][1000 genomes]
rs674250	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs677700	1.00[CEU][hapmap];0.95[CHB][hapmap];0.92[JPT][hapmap];0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs679076	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs679382	0.86[ASN][1000 genomes]
rs680846	0.96[ASN][1000 genomes]
rs681158	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs687804	0.95[CHB][hapmap];0.91[CHD][hapmap];0.85[ASN][1000 genomes]
rs689039	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs694952	0.86[ASN][1000 genomes]
rs7130920	0.95[CHB][hapmap];0.94[CHD][hapmap];0.85[ASN][1000 genomes]
rs9645702	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044081	chr11:86133641-86868560	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv541118	chr11:86133641-86868560	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv898056	chr11:86156848-86304402	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86160200-86221000	Weak transcription	Primary T cells from cord blood	blood
2	chr11:86172400-86227000	Weak transcription	Brain Cingulate Gyrus	brain
3	chr11:86189200-86222600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr11:86189600-86221600	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr11:86195200-86222200	Weak transcription	Rectal Smooth Muscle	rectum
6	chr11:86198600-86222800	Weak transcription	Esophagus	oesophagus
7	chr11:86202800-86226400	Weak transcription	Fetal Lung	lung
8	chr11:86204000-86222200	Weak transcription	Colon Smooth Muscle	Colon
9	chr11:86204600-86220000	Weak transcription	Colonic Mucosa	Colon
10	chr11:86209200-86219600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr11:86209200-86221200	Weak transcription	NH-A	brain
12	chr11:86209200-86223600	Weak transcription	Brain Angular Gyrus	brain
13	chr11:86209200-86226600	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr11:86209400-86219200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr11:86209400-86220000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr11:86209400-86221600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr11:86209400-86221600	Weak transcription	HSMM	muscle
18	chr11:86209600-86221800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr11:86211400-86222800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr11:86211600-86220000	Weak transcription	Pancreas	Pancrea
21	chr11:86211600-86229800	Weak transcription	Brain Anterior Caudate	brain
22	chr11:86211800-86219400	Weak transcription	Fetal Heart	heart
23	chr11:86212000-86220200	Weak transcription	Right Atrium	heart
24	chr11:86212800-86221600	Weak transcription	K562	blood
25	chr11:86213800-86219200	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr11:86214800-86222000	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr11:86215000-86229800	Weak transcription	Lung	lung
28	chr11:86215200-86221800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr11:86215200-86222400	Weak transcription	Ovary	ovary
30	chr11:86215200-86222600	Weak transcription	Primary hematopoietic stem cells	blood
31	chr11:86215200-86223400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr11:86215200-86226400	Weak transcription	Spleen	Spleen
33	chr11:86215400-86219000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr11:86215400-86219200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr11:86215400-86219200	Weak transcription	HMEC	breast
36	chr11:86215400-86219400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr11:86215400-86219400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr11:86215400-86219400	Weak transcription	HUVEC	blood vessel
39	chr11:86215400-86219400	Weak transcription	Osteobl	bone
40	chr11:86215400-86219800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr11:86215400-86220000	Weak transcription	HSMMtube	muscle
42	chr11:86215400-86221000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr11:86215400-86222400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr11:86215400-86222400	Weak transcription	Right Ventricle	heart
45	chr11:86215400-86223400	Weak transcription	Fetal Kidney	kidney
46	chr11:86215400-86225000	Weak transcription	Psoas Muscle	Psoas
47	chr11:86215600-86219400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr11:86215800-86230000	Weak transcription	Fetal Muscle Trunk	muscle
49	chr11:86216000-86222600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
50	chr11:86216200-86220000	Weak transcription	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links