Variant report

Variant	rs1503133
Chromosome Location	chr6:54709911-54709912
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:54483454..54486448-chr6:54709404..54710933,2	MCF-7	breast:
2	chr6:54709139..54711220-chr6:54750997..54752618,2	MCF-7	breast:
3	chr20:52738859..52741782-chr6:54708785..54710307,2	MCF-7	breast:
4	chr6:54556132..54558033-chr6:54708676..54711461,2	MCF-7	breast:
5	chr6:54709202..54711186-chr6:54779955..54782595,2	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10080497	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10080987	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1021836	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10948855	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12194012	0.86[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12210299	0.87[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1566753	0.96[CEU][hapmap];0.92[MEX][hapmap];0.92[TSI][hapmap];0.87[EUR][1000 genomes]
rs1812584	0.95[CEU][hapmap];0.87[EUR][1000 genomes]
rs1910356	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1976537	0.87[EUR][1000 genomes]
rs1976538	0.86[EUR][1000 genomes]
rs2397168	0.87[EUR][1000 genomes]
rs2397169	0.96[CEU][hapmap];0.85[EUR][1000 genomes]
rs2397170	0.96[CEU][hapmap];0.87[EUR][1000 genomes]
rs2397171	0.95[CEU][hapmap];0.87[EUR][1000 genomes]
rs3929470	0.87[EUR][1000 genomes]
rs4318881	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4516942	0.96[CEU][hapmap];0.92[MEX][hapmap];0.92[TSI][hapmap];0.87[EUR][1000 genomes]
rs4712073	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4715485	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6459026	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6459027	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6459029	0.87[CEU][hapmap];0.90[CHB][hapmap];0.88[JPT][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6900072	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6916633	0.95[CEU][hapmap]
rs6916818	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6919743	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6922968	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6926214	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6931473	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6937981	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7746125	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7749110	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7751955	0.88[JPT][hapmap]
rs7752214	0.86[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.97[TSI][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7760890	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7762606	0.86[ASW][hapmap];0.96[CEU][hapmap];0.96[MEX][hapmap];0.92[TSI][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7770409	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9349732	0.88[EUR][1000 genomes]
rs9367591	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9370328	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9370332	0.83[MEX][hapmap]
rs9395997	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9464145	0.83[TSI][hapmap]
rs9464146	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9464151	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs952188	0.84[MEX][hapmap]
rs965009	0.96[CEU][hapmap];0.87[EUR][1000 genomes]
rs973020	0.91[CEU][hapmap];0.92[MEX][hapmap];0.92[TSI][hapmap];0.87[EUR][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	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2763553	chr6:54687979-54820487	Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv823700	chr6:54709648-54710116	Active TSS Enhancers Weak transcription Bivalent/Poised TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54707200-54710800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:54707400-54710200	Weak transcription	NHEK	skin
3	chr6:54707400-54710800	Weak transcription	Placenta	Placenta
4	chr6:54709000-54710000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr6:54709000-54710400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr6:54709000-54713400	Active TSS	Rectal Mucosa Donor 29	rectum
7	chr6:54709000-54714200	Active TSS	Duodenum Mucosa	Duodenum
8	chr6:54709200-54710200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr6:54709200-54710200	Enhancers	HMEC	breast
10	chr6:54709400-54710800	Weak transcription	Fetal Intestine Small	intestine
11	chr6:54709800-54710400	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr6:54709800-54713400	Active TSS	Rectal Mucosa Donor 31	rectum

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