Variant report

Variant	rs9483557
Chromosome Location	chr6:133492507-133492508
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:133484970..133486703-chr6:133490391..133493056,2	MCF-7	breast:

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10457600	0.88[EUR][1000 genomes]
rs10457602	0.95[CEU][hapmap];0.90[CHB][hapmap]
rs10457603	0.95[CEU][hapmap];0.90[CHB][hapmap]
rs10872402	0.82[ASN][1000 genomes]
rs11154715	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12154207	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12190728	0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12191026	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12193038	0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs12193158	0.84[ASN][1000 genomes]
rs12196069	0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12196492	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12199138	0.88[EUR][1000 genomes]
rs12199555	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12199738	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12199958	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12200393	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12201315	0.95[CEU][hapmap];0.90[CHB][hapmap]
rs12202540	0.84[ASN][1000 genomes]
rs12206291	0.83[EUR][1000 genomes]
rs12206438	0.84[ASN][1000 genomes]
rs12210216	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12211999	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12213350	0.88[EUR][1000 genomes]
rs12213452	0.88[EUR][1000 genomes]
rs12213690	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12215217	0.88[EUR][1000 genomes]
rs1856291	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59793266	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62428563	0.87[EUR][1000 genomes]
rs62428596	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62428597	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6913444	0.84[EUR][1000 genomes]
rs7746390	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7748926	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7750218	0.89[EUR][1000 genomes]
rs7750279	0.95[CEU][hapmap];0.90[CHB][hapmap];0.90[EUR][1000 genomes]
rs7750376	0.95[CEU][hapmap];0.89[CHB][hapmap];0.89[EUR][1000 genomes]
rs7752905	0.84[ASN][1000 genomes]
rs7754486	0.95[CEU][hapmap];0.89[CHB][hapmap];0.87[EUR][1000 genomes]
rs7756171	0.90[CEU][hapmap]
rs7756963	0.85[EUR][1000 genomes]
rs7763647	0.83[ASN][1000 genomes]
rs7766470	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7767378	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7767651	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7770031	0.89[EUR][1000 genomes]
rs7773069	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9373038	0.84[ASN][1000 genomes]
rs9375940	0.84[ASN][1000 genomes]
rs9375942	0.82[ASN][1000 genomes]
rs9389052	0.83[ASN][1000 genomes]
rs9399052	0.84[ASN][1000 genomes]
rs9402484	0.84[ASN][1000 genomes]
rs9402485	0.83[ASN][1000 genomes]
rs9402486	0.84[ASN][1000 genomes]
rs9402487	0.84[ASN][1000 genomes]
rs9483554	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9483560	0.84[ASN][1000 genomes]
rs9493540	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9493544	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9493554	0.84[ASN][1000 genomes]
rs957183	0.86[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	nsv428154	chr6:133271975-133522803	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	esv2758080	chr6:133444719-133627364	Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv2759470	chr6:133444719-133627364	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv886677	chr6:133454738-133515602	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv519757	chr6:133492507-133497320	Weak transcription Enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv524926	chr6:133492507-133510691	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv464058	chr6:133492507-133527935	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv604698	chr6:133492507-133527935	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv470862	chr6:133492507-133600402	Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Bivalent/Poised TSS Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133486800-133493200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:133491600-133493200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr6:133491600-133493400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr6:133492000-133493200	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr6:133492000-133493400	Weak transcription	Brain Substantia Nigra	brain
6	chr6:133492000-133494200	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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