Variant report

Variant	rs2434398
Chromosome Location	chr6:13542074-13542075
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	chr6:13477477..13480262-chr6:13540043..13542876,2	MCF-7	breast:
2	chr6:13486789..13489156-chr6:13538983..13542813,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000145990	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs2081874	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2434397	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2494775	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2560764	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2560767	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2560769	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2560774	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2560775	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2560776	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2560784	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2841526	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2841527	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2841528	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2841532	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2841569	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2841570	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2841572	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4715379	0.85[ASN][1000 genomes]
rs4715380	0.85[ASN][1000 genomes]
rs4715388	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61312460	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62387366	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62387367	0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62387368	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62387369	0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6458898	0.83[ASN][1000 genomes]
rs6923024	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6939496	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73723737	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7763316	0.99[ASN][1000 genomes]
rs9370202	0.99[ASN][1000 genomes]
rs9382205	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532021	chr6:13232627-13805381	Active TSS Genic enhancers Strong transcription Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
2	nsv1033620	chr6:13419730-13571788	Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13536400-13543600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr6:13538000-13544800	Weak transcription	Liver	Liver
3	chr6:13539400-13545800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr6:13541600-13542200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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