Variant report

Variant	rs7123541
Chromosome Location	chr11:10338110-10338111
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:10335615..10338185-chr11:10340007..10342257,2	MCF-7	breast:
2	chr11:10324179..10326085-chr11:10337865..10340352,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000254554	Chromatin interaction

Extended variants
information (count: 107 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:106)

rs_ID	r²[population]
rs12279871	0.91[CEU][hapmap]
rs1372810	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1450265	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1450266	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1450268	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1450275	0.90[CEU][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1450276	0.91[CEU][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1470686	0.96[EUR][1000 genomes]
rs1597450	0.88[EUR][1000 genomes]
rs16907654	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17292774	1.00[CEU][hapmap];0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17294609	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17294693	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17295786	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17296211	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17296765	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17358721	1.00[CEU][hapmap];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17358882	1.00[CEU][hapmap];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17359382	1.00[CEU][hapmap];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17360118	1.00[CEU][hapmap];0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2044781	0.91[EUR][1000 genomes]
rs28733206	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2920149	0.91[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2957657	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2957686	0.96[EUR][1000 genomes]
rs4077089	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4403799	0.90[EUR][1000 genomes]
rs61877264	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61878652	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs61878654	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61878655	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61878657	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61878658	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61878659	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61880160	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61889783	0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889785	0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889795	1.00[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889796	1.00[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889802	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889815	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889816	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889817	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889836	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889840	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889842	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889843	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889845	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889846	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889847	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889956	0.91[AMR][1000 genomes]
rs61889957	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61891762	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61891764	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61891767	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61891768	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61891770	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61891771	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61891773	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61891775	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61891776	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61891793	0.82[AFR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61892569	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61892570	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61892572	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61892573	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61892575	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61892593	0.95[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61892594	0.95[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61892595	0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61892596	0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61892597	0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6484142	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7103637	0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7104591	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7105355	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7107373	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7108385	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7109096	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7111544	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7111647	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7120043	1.00[ASN][1000 genomes]
rs7122370	1.00[ASN][1000 genomes]
rs7123467	0.82[AMR][1000 genomes]
rs7125823	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7129220	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72850458	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72851648	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72851670	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72851674	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72861738	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72861762	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72861767	0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72861799	1.00[ASN][1000 genomes]
rs7929332	1.00[CEU][hapmap];0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7930218	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7933724	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7935257	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7939531	1.00[ASN][1000 genomes]
rs7941320	0.91[EUR][1000 genomes]
rs7941557	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7945990	0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7947210	0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7949974	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs896043	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9705133	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430319	chr11:10027543-10711224	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:10330200-10338600	Weak transcription	Brain Cingulate Gyrus	brain
2	chr11:10330800-10339400	Weak transcription	Psoas Muscle	Psoas
3	chr11:10330800-10344400	Weak transcription	Primary hematopoietic stem cells	blood
4	chr11:10331000-10340000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr11:10331000-10340000	Weak transcription	Spleen	Spleen
6	chr11:10331200-10338600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr11:10331200-10338600	Weak transcription	Stomach Smooth Muscle	stomach
8	chr11:10331400-10343800	Weak transcription	NHLF	lung
9	chr11:10331800-10338400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr11:10331800-10338600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr11:10331800-10339000	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr11:10331800-10344200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr11:10332200-10338400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr11:10332200-10338600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr11:10332200-10338600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr11:10332200-10338600	Weak transcription	Left Ventricle	heart
17	chr11:10332400-10338400	Weak transcription	Fetal Thymus	thymus
18	chr11:10332400-10338600	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr11:10332400-10338600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr11:10332400-10338600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr11:10332400-10338600	Weak transcription	Colon Smooth Muscle	Colon
22	chr11:10332400-10338600	Weak transcription	Ovary	ovary
23	chr11:10332400-10340000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr11:10332400-10340000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr11:10336200-10338400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr11:10336400-10338600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr11:10336400-10338600	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr11:10336400-10338600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr11:10336400-10339200	Weak transcription	H9 Cell Line	embryonic stem cell
30	chr11:10336400-10343400	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr11:10336400-10344000	Weak transcription	Osteobl	bone
32	chr11:10336600-10338200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr11:10336600-10338400	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr11:10336600-10338400	Weak transcription	Adipose Nuclei	Adipose
35	chr11:10336600-10338400	Enhancers	GM12878-XiMat	blood
36	chr11:10336600-10338600	Weak transcription	Primary B cells from peripheral blood	blood
37	chr11:10336600-10338600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr11:10336600-10338600	Weak transcription	Brain Anterior Caudate	brain
39	chr11:10336600-10338600	Weak transcription	A549	lung
40	chr11:10336600-10338600	Weak transcription	HepG2	liver
41	chr11:10336600-10339000	Weak transcription	HUES48 Cell Line	embryonic stem cell
42	chr11:10336600-10340000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr11:10336600-10343200	Weak transcription	Stomach Mucosa	stomach
44	chr11:10337000-10338600	Weak transcription	Small Intestine	intestine
45	chr11:10337000-10339800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr11:10337800-10338600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr11:10337800-10339800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr11:10337800-10342200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr11:10337800-10343400	Enhancers	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links