Variant report

Variant	rs998615
Chromosome Location	chr4:55714197-55714198
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	chr4:55707866..55710526-chr4:55713081..55715385,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1391133	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1391134	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1497476	0.87[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1497493	0.90[EUR][1000 genomes]
rs1497496	0.89[EUR][1000 genomes]
rs1497498	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1532460	0.83[EUR][1000 genomes]
rs17084899	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1874645	0.90[EUR][1000 genomes]
rs1874646	0.91[EUR][1000 genomes]
rs1874648	0.90[EUR][1000 genomes]
rs1874652	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1874653	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2173231	0.90[EUR][1000 genomes]
rs2270674	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2646314	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2726630	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs28402753	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28435137	0.83[EUR][1000 genomes]
rs28605787	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28720093	0.81[EUR][1000 genomes]
rs3920049	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4864932	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55841826	0.91[EUR][1000 genomes]
rs61708640	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6825254	0.91[EUR][1000 genomes]
rs6827165	0.90[EUR][1000 genomes]
rs6847687	0.91[EUR][1000 genomes]
rs7659889	0.90[EUR][1000 genomes]
rs7677880	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999400	chr4:55143598-55776995	Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	esv3367952	chr4:55437113-55724644	Bivalent/Poised TSS Strong transcription Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv526344	chr4:55522488-56231119	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	esv1836939	chr4:55701134-55716601	Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:55709200-55721600	Weak transcription	Fetal Stomach	stomach
2	chr4:55713800-55715600	Weak transcription	Brain Germinal Matrix	brain

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