Variant report

Variant	rs28878515
Chromosome Location	chr4:125832083-125832084
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:125831092..125833359-chr4:125835082..125836657,2	MCF-7	breast:

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10012942	1.00[AMR][1000 genomes]
rs10021176	1.00[EUR][1000 genomes]
rs10021315	0.94[AFR][1000 genomes]
rs10021730	0.94[AFR][1000 genomes]
rs10022783	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10026029	1.00[AMR][1000 genomes]
rs10026376	1.00[AMR][1000 genomes]
rs10033965	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10212646	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10471028	0.94[AFR][1000 genomes]
rs17008761	1.00[EUR][1000 genomes]
rs17008774	1.00[EUR][1000 genomes]
rs2390746	1.00[EUR][1000 genomes]
rs28373772	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28461891	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28526774	1.00[AMR][1000 genomes]
rs28559727	1.00[AMR][1000 genomes]
rs28561980	1.00[AMR][1000 genomes]
rs28839783	0.94[AFR][1000 genomes]
rs2893108	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56234259	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56276915	1.00[EUR][1000 genomes]
rs56819477	1.00[EUR][1000 genomes]
rs57913129	1.00[EUR][1000 genomes]
rs58495425	1.00[EUR][1000 genomes]
rs58752358	1.00[EUR][1000 genomes]
rs59571426	1.00[EUR][1000 genomes]
rs60218356	1.00[EUR][1000 genomes]
rs6824844	1.00[EUR][1000 genomes]
rs6829353	1.00[EUR][1000 genomes]
rs6852051	1.00[EUR][1000 genomes]
rs72912728	1.00[EUR][1000 genomes]
rs72912730	1.00[EUR][1000 genomes]
rs72912744	1.00[EUR][1000 genomes]
rs72912745	1.00[EUR][1000 genomes]
rs72912777	1.00[EUR][1000 genomes]
rs73845286	1.00[EUR][1000 genomes]
rs73845302	1.00[EUR][1000 genomes]
rs73845815	1.00[AMR][1000 genomes]
rs73845816	1.00[EUR][1000 genomes]
rs73845820	1.00[EUR][1000 genomes]
rs73848116	1.00[EUR][1000 genomes]
rs9307553	0.94[AFR][1000 genomes]
rs9307554	1.00[AMR][1000 genomes]
rs9990868	1.00[AMR][1000 genomes]
rs9991412	0.88[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1011752	chr4:125708756-125932456	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv1001338	chr4:125708756-126103293	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv830050	chr4:125717858-125888563	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv879884	chr4:125791252-125841892	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv879885	chr4:125791252-125852874	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv879886	chr4:125791252-125856465	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv470069	chr4:125807868-125850998	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv879887	chr4:125816783-125847530	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv879888	chr4:125816783-125850022	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv879889	chr4:125816783-125853748	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv524519	chr4:125826626-125842087	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv879890	chr4:125828458-125850022	Enhancers ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv879891	chr4:125828458-125850998	Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:125824200-125833400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr4:125826400-125834800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr4:125831600-125832200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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