Variant report

Variant	rs471709
Chromosome Location	chr11:65908860-65908861
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:65901646..65904631-chr11:65908270..65911227,4	MCF-7	breast:
2	chr11:65904866..65907963-chr11:65908725..65912657,6	MCF-7	breast:
3	chr11:65908482..65910838-chr11:65913750..65916092,2	MCF-7	breast:
4	chr11:65835157..65840095-chr11:65905234..65913819,10	MCF-7	breast:

Variant related genes	Relation type
ENSG00000175115	Chromatin interaction
ENSG00000255038	Chromatin interaction

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs1151532	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1190945	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1190946	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1191715	0.92[AFR][1000 genomes]
rs1203551	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1203552	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1203749	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1203750	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1203801	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1211863	1.00[JPT][hapmap]
rs1630638	0.92[AFR][1000 genomes]
rs1783562	0.89[AFR][1000 genomes]
rs1783732	1.00[YRI][hapmap]
rs2430981	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2452687	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3016315	0.82[AFR][1000 genomes]
rs3017606	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs472853	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs475817	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs477001	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs485547	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4930332	0.93[AFR][1000 genomes]
rs502898	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs504456	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs505412	1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs505642	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs510398	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs512316	1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs515778	1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs519911	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs527279	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs532265	0.83[AFR][1000 genomes]
rs540943	1.00[JPT][hapmap]
rs541954	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs547282	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs547892	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs549228	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs551652	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs555527	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs555826	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs559298	1.00[YRI][hapmap]
rs560105	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs560983	0.80[AFR][1000 genomes]
rs561199	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs561869	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs567414	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs568423	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs571368	1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs572697	1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs577301	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs581247	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6591196	0.89[AFR][1000 genomes]
rs693382	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7934588	0.85[AFR][1000 genomes]
rs7947668	0.92[AFR][1000 genomes]
rs948358	1.00[YRI][hapmap]
rs948477	1.00[YRI][hapmap];0.92[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948711	chr11:65692760-65949674	Genic enhancers Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	65 gene(s)	inside rSNPs	diseases
2	esv3335923	chr11:65741698-66175759	Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	117 gene(s)	inside rSNPs	diseases
3	esv1819302	chr11:65787660-66007018	Active TSS Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
4	esv3407551	chr11:65794503-66158322	Weak transcription Genic enhancers Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	103 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:65888400-65909800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr11:65894400-65909000	Weak transcription	K562	blood
3	chr11:65894800-65912200	Weak transcription	Thymus	Thymus
4	chr11:65895000-65909200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr11:65895000-65913800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr11:65895000-65917600	Weak transcription	HSMM	muscle
7	chr11:65895200-65912200	Weak transcription	Lung	lung
8	chr11:65895200-65913000	Weak transcription	Psoas Muscle	Psoas
9	chr11:65895400-65909400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr11:65895400-65910200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr11:65895600-65909400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr11:65895600-65909800	Weak transcription	NHEK	skin
13	chr11:65896600-65912800	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr11:65898400-65913000	Weak transcription	Spleen	Spleen
15	chr11:65900000-65909800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr11:65901000-65919400	Weak transcription	Fetal Muscle Trunk	muscle
17	chr11:65901200-65909800	Weak transcription	Primary hematopoietic stem cells	blood
18	chr11:65901200-65910800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
19	chr11:65902000-65912800	Weak transcription	Right Atrium	heart
20	chr11:65902200-65909600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr11:65902200-65910400	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr11:65903800-65909400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr11:65905200-65909000	Weak transcription	Stomach Mucosa	stomach
24	chr11:65905200-65909200	Weak transcription	Hela-S3	cervix
25	chr11:65905200-65909600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
26	chr11:65905200-65909800	Weak transcription	NH-A	brain
27	chr11:65905200-65910400	Weak transcription	Fetal Heart	heart
28	chr11:65905200-65913000	Weak transcription	Aorta	Aorta
29	chr11:65905200-65947000	Weak transcription	Fetal Lung	lung
30	chr11:65905400-65909600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr11:65905400-65909600	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr11:65905400-65910200	Weak transcription	NHDF-Ad	bronchial
33	chr11:65905400-65910200	Weak transcription	NHLF	lung
34	chr11:65905400-65911000	Weak transcription	Fetal Intestine Large	intestine
35	chr11:65905400-65939600	Weak transcription	Monocytes-CD14+_RO01746	blood
36	chr11:65905600-65909200	Weak transcription	Osteobl	bone
37	chr11:65905600-65909800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr11:65905600-65910400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr11:65905600-65912600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr11:65905800-65909400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
41	chr11:65905800-65910600	Weak transcription	Small Intestine	intestine
42	chr11:65905800-65924200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
43	chr11:65905800-65952800	Weak transcription	Fetal Stomach	stomach
44	chr11:65906000-65909200	Weak transcription	Fetal Intestine Small	intestine
45	chr11:65906000-65909800	Weak transcription	Duodenum Mucosa	Duodenum
46	chr11:65906000-65912800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
47	chr11:65906000-65960200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
48	chr11:65906800-65909600	Enhancers	A549	lung
49	chr11:65906800-65910000	Weak transcription	Primary B cells from cord blood	blood
50	chr11:65907000-65909000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links