Variant report

Variant	rs6537773
Chromosome Location	chr1:113685423-113685424
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:113679152..113685949-chr1:113930075..113933879,13	MCF-7	breast:
2	chr1:113683011..113687065-chr1:113687072..113690657,5	K562	blood:
3	chr1:113680385..113687065-chr1:113687067..113690757,6	K562	blood:
4	chr1:113683696..113687122-chr1:113688209..113690807,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000081026	Chromatin interaction

Extended variants
information (count: 120 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:111)

rs_ID	r²[population]
rs10442680	0.81[EUR][1000 genomes]
rs10494148	0.81[CEU][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes]
rs10494149	0.81[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes]
rs10494150	0.81[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes]
rs10494152	0.82[CEU][hapmap];0.94[EUR][1000 genomes]
rs10494153	0.81[EUR][1000 genomes]
rs10776764	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11102590	0.92[EUR][1000 genomes]
rs11102591	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12070586	0.91[EUR][1000 genomes]
rs12072108	1.00[JPT][hapmap];0.91[EUR][1000 genomes]
rs12073607	0.91[EUR][1000 genomes]
rs12123070	0.94[EUR][1000 genomes]
rs12123194	0.94[EUR][1000 genomes]
rs12123876	0.94[EUR][1000 genomes]
rs12125209	1.00[CHB][hapmap];0.88[EUR][1000 genomes]
rs12125253	0.88[EUR][1000 genomes]
rs12125281	0.94[EUR][1000 genomes]
rs12125282	0.94[EUR][1000 genomes]
rs12126040	0.94[EUR][1000 genomes]
rs12126180	0.94[EUR][1000 genomes]
rs12126412	0.91[CEU][hapmap];0.94[EUR][1000 genomes]
rs12126415	0.91[CEU][hapmap];0.94[EUR][1000 genomes]
rs12127119	0.91[CEU][hapmap];0.94[EUR][1000 genomes]
rs12127186	0.94[EUR][1000 genomes]
rs12129741	0.91[CEU][hapmap];0.94[EUR][1000 genomes]
rs12129773	0.88[CEU][hapmap];0.94[EUR][1000 genomes]
rs12129924	0.88[EUR][1000 genomes]
rs12130429	0.88[EUR][1000 genomes]
rs12130787	0.94[EUR][1000 genomes]
rs12131406	0.86[EUR][1000 genomes]
rs12132547	0.94[EUR][1000 genomes]
rs12133159	0.86[EUR][1000 genomes]
rs12133521	0.86[EUR][1000 genomes]
rs12134261	0.94[EUR][1000 genomes]
rs12134347	0.91[EUR][1000 genomes]
rs12136369	0.94[EUR][1000 genomes]
rs12137440	0.91[CEU][hapmap];0.94[EUR][1000 genomes]
rs12140812	0.81[EUR][1000 genomes]
rs12141374	0.88[EUR][1000 genomes]
rs12141890	1.00[JPT][hapmap];0.90[EUR][1000 genomes]
rs1216791	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1216796	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1216797	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1216872	0.91[EUR][1000 genomes]
rs1216873	0.89[EUR][1000 genomes]
rs1216884	0.86[EUR][1000 genomes]
rs1216886	0.80[AMR][1000 genomes]
rs1216890	0.91[CEU][hapmap]
rs12404563	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12405087	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12723657	0.88[EUR][1000 genomes]
rs12728957	0.94[EUR][1000 genomes]
rs12732564	0.89[EUR][1000 genomes]
rs12736831	0.94[EUR][1000 genomes]
rs12745847	0.99[AFR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12748429	0.88[EUR][1000 genomes]
rs12757593	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12760482	0.88[EUR][1000 genomes]
rs1316767	0.88[EUR][1000 genomes]
rs1324893	0.81[EUR][1000 genomes]
rs1661	0.82[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes]
rs17031099	0.82[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17031158	0.88[EUR][1000 genomes]
rs17031160	0.88[EUR][1000 genomes]
rs17497065	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs1933656	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1933660	0.94[EUR][1000 genomes]
rs1999905	0.91[CEU][hapmap];0.94[EUR][1000 genomes]
rs1999906	0.89[CEU][hapmap];0.94[EUR][1000 genomes]
rs2185105	0.88[EUR][1000 genomes]
rs2185106	0.88[EUR][1000 genomes]
rs2359709	0.87[EUR][1000 genomes]
rs2359710	0.88[EUR][1000 genomes]
rs2359711	0.88[EUR][1000 genomes]
rs34236373	0.90[EUR][1000 genomes]
rs34441710	0.94[EUR][1000 genomes]
rs35368423	0.94[EUR][1000 genomes]
rs35470019	0.94[EUR][1000 genomes]
rs35737003	0.87[EUR][1000 genomes]
rs35793987	0.91[EUR][1000 genomes]
rs35822819	0.86[EUR][1000 genomes]
rs36049267	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4240536	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4427400	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4630126	0.82[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4839290	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4839293	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4839295	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4839296	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4839297	0.91[CEU][hapmap];0.94[EUR][1000 genomes]
rs56204018	0.91[EUR][1000 genomes]
rs6537777	0.89[CEU][hapmap];0.94[EUR][1000 genomes]
rs6683099	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs67028986	0.94[EUR][1000 genomes]
rs67038449	0.94[EUR][1000 genomes]
rs72685622	0.91[EUR][1000 genomes]
rs749956	0.90[EUR][1000 genomes]
rs7513596	0.91[CEU][hapmap];0.94[EUR][1000 genomes]
rs7513698	0.91[CEU][hapmap];0.94[EUR][1000 genomes]
rs7515810	0.88[EUR][1000 genomes]
rs7521854	0.87[EUR][1000 genomes]
rs7540970	0.88[EUR][1000 genomes]
rs7543653	0.81[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7548091	0.82[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes]
rs7551138	0.89[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes]
rs7556148	0.90[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes]
rs7556534	0.86[EUR][1000 genomes]
rs946219	0.89[CEU][hapmap]
rs946220	0.81[EUR][1000 genomes]
rs9628702	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002971	chr1:112924725-113740584	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	166 gene(s)	inside rSNPs	diseases
2	nsv535059	chr1:112924725-113740584	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	166 gene(s)	inside rSNPs	diseases
3	nsv1010276	chr1:113123932-113740584	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	158 gene(s)	inside rSNPs	diseases
4	nsv1012119	chr1:113214869-113759081	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	103 gene(s)	inside rSNPs	diseases
5	nsv535060	chr1:113214869-113759081	Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	103 gene(s)	inside rSNPs	diseases
6	nsv529238	chr1:113229946-113759080	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	100 gene(s)	inside rSNPs	diseases
7	esv18293	chr1:113375437-113852815	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
8	nsv1007045	chr1:113425222-113839910	Genic enhancers Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
9	nsv427719	chr1:113570229-114078388	Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:113669600-113689400	Weak transcription	Thymus	Thymus
2	chr1:113669800-113690000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr1:113682800-113687400	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr1:113683000-113686200	Enhancers	Stomach Mucosa	stomach
5	chr1:113683000-113687000	Enhancers	Ovary	ovary
6	chr1:113683400-113685600	Enhancers	A549	lung
7	chr1:113683400-113685600	Enhancers	Hela-S3	cervix
8	chr1:113683400-113685600	Enhancers	NHEK	skin
9	chr1:113683400-113685800	Enhancers	Muscle Satellite Cultured Cells	--
10	chr1:113683400-113686000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr1:113683400-113686000	Enhancers	Colon Smooth Muscle	Colon
12	chr1:113683400-113686000	Enhancers	Fetal Muscle Leg	muscle
13	chr1:113683400-113686000	Enhancers	Fetal Stomach	stomach
14	chr1:113683400-113686000	Enhancers	HMEC	breast
15	chr1:113683400-113686000	Enhancers	HSMM	muscle
16	chr1:113683400-113686000	Enhancers	NH-A	brain
17	chr1:113683400-113686200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr1:113683400-113686200	Enhancers	HUVEC	blood vessel
19	chr1:113683400-113686400	Enhancers	Psoas Muscle	Psoas
20	chr1:113683400-113687000	Enhancers	Skeletal Muscle Male	skeletal muscle
21	chr1:113683600-113686400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr1:113683800-113686000	Enhancers	Brain Anterior Caudate	brain
23	chr1:113683800-113686200	Enhancers	HSMMtube	muscle
24	chr1:113683800-113689000	Weak transcription	Primary hematopoietic stem cells	blood
25	chr1:113683800-113689200	Weak transcription	Primary T cells fromperipheralblood	blood
26	chr1:113683800-113689800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr1:113684000-113686000	Enhancers	Osteobl	bone
28	chr1:113684000-113688400	Weak transcription	Fetal Kidney	kidney
29	chr1:113684000-113688800	Weak transcription	Placenta	Placenta
30	chr1:113684000-113688800	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr1:113684000-113689000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr1:113684000-113689800	Weak transcription	Lung	lung
33	chr1:113684200-113685800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr1:113684200-113686000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
35	chr1:113684200-113686200	Enhancers	Adipose Nuclei	Adipose
36	chr1:113684200-113689800	Weak transcription	Small Intestine	intestine
37	chr1:113684400-113688800	Weak transcription	Colonic Mucosa	Colon
38	chr1:113684400-113688800	Weak transcription	Fetal Thymus	thymus
39	chr1:113684400-113689200	Weak transcription	Placenta Amnion	Placenta Amnion
40	chr1:113684400-113692800	Weak transcription	GM12878-XiMat	blood
41	chr1:113684600-113685600	Enhancers	iPS-18 Cell Line	embryonic stem cell
42	chr1:113684600-113685600	Weak transcription	Fetal Lung	lung
43	chr1:113684600-113685800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr1:113684600-113686000	Weak transcription	Duodenum Smooth Muscle	Duodenum
45	chr1:113684600-113688400	Weak transcription	Rectal Mucosa Donor 31	rectum
46	chr1:113684600-113689200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr1:113684800-113685600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
48	chr1:113684800-113685600	Enhancers	iPS-15b Cell Line	embryonic stem cell
49	chr1:113684800-113685600	Enhancers	iPS-20b Cell Line	embryonic stem cell
50	chr1:113684800-113688200	Weak transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links