Variant report

Variant	rs6553817
Chromosome Location	chr4:175688953-175688954
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:175687431..175690147-chr4:176049517..176052415,2	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs11133054	0.86[CEU][hapmap];0.83[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11133055	0.85[CEU][hapmap];0.82[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11945237	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13110718	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs13126499	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1352055	1.00[CEU][hapmap];0.87[YRI][hapmap]
rs1385832	1.00[CEU][hapmap]
rs1385838	0.85[CEU][hapmap];0.80[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1385839	0.86[CEU][hapmap];0.80[YRI][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1485931	1.00[CEU][hapmap];0.82[YRI][hapmap]
rs36082225	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4513542	1.00[CEU][hapmap];0.85[YRI][hapmap]
rs4695961	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4695962	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6553818	0.82[CEU][hapmap]
rs6553819	0.86[CEU][hapmap];0.83[YRI][hapmap]
rs6553820	0.86[CEU][hapmap];0.80[YRI][hapmap]
rs6553821	0.83[CEU][hapmap]
rs6553823	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6553825	0.85[CEU][hapmap];0.87[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6553827	0.85[CEU][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6553828	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6825415	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6825619	0.86[CEU][hapmap];0.83[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6826181	0.86[CEU][hapmap];0.83[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6830550	1.00[CEU][hapmap];0.87[YRI][hapmap]
rs6832656	0.86[CEU][hapmap]
rs6833303	1.00[CEU][hapmap];0.87[YRI][hapmap]
rs6838010	0.86[CEU][hapmap]
rs6839668	0.86[CEU][hapmap];0.87[YRI][hapmap]
rs6841074	1.00[CEU][hapmap]
rs6846497	1.00[CEU][hapmap];0.86[YRI][hapmap]
rs6847879	1.00[CEU][hapmap];0.85[YRI][hapmap]
rs6853830	0.85[CEU][hapmap];0.86[YRI][hapmap]
rs6854762	0.86[CEU][hapmap];0.87[YRI][hapmap]
rs6855717	0.84[CEU][hapmap];0.86[YRI][hapmap]
rs6858127	0.90[CEU][hapmap];0.85[YRI][hapmap]
rs7687424	1.00[CEU][hapmap];0.92[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7696263	1.00[CEU][hapmap];0.90[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869116	chr4:175231090-175801761	Flanking Active TSS Enhancers Genic enhancers Weak transcription Bivalent/Poised TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1018390	chr4:175475505-175969742	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv1034301	chr4:175656538-176055348	Active TSS Bivalent Enhancer Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv537364	chr4:175656538-176055348	Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv1030235	chr4:175663839-175969742	Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv537365	chr4:175663839-175969742	Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv1027622	chr4:175680329-175716070	Active TSS Weak transcription Enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:175688800-175689400	Enhancers	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links