Variant report

Variant	rs2560796
Chromosome Location	chr6:13504586-13504587
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	chr6:13486342..13488490-chr6:13504374..13507205,2	MCF-7	breast:
2	chr6:13503277..13504938-chr6:13505521..13507595,2	K562	blood:

Variant related genes	Relation type
ENSG00000145990	Chromatin interaction
ENSG00000237786	Chromatin interaction
ENSG00000187461	Chromatin interaction

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs2494775	0.90[ASN][1000 genomes]
rs2560767	0.86[ASN][1000 genomes]
rs2560769	0.82[ASN][1000 genomes]
rs2560774	0.91[ASN][1000 genomes]
rs2560775	0.91[ASN][1000 genomes]
rs2560776	0.91[ASN][1000 genomes]
rs2560777	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2560778	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2560780	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2560781	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2560784	0.99[ASN][1000 genomes]
rs2560786	0.96[ASN][1000 genomes]
rs2560787	0.99[ASN][1000 genomes]
rs2560789	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2560790	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2560791	0.99[ASN][1000 genomes]
rs2560792	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2560793	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2560794	0.97[ASN][1000 genomes]
rs2560797	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2560798	0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2560799	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2560800	0.90[ASN][1000 genomes]
rs2560802	0.98[ASN][1000 genomes]
rs2560803	0.88[ASN][1000 genomes]
rs2560804	0.98[ASN][1000 genomes]
rs2560805	0.98[ASN][1000 genomes]
rs2560806	0.98[ASN][1000 genomes]
rs2841526	0.91[ASN][1000 genomes]
rs2841527	0.91[ASN][1000 genomes]
rs2841528	0.91[ASN][1000 genomes]
rs2841530	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2841531	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2841532	0.99[ASN][1000 genomes]
rs2841533	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2841535	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2841536	0.97[ASN][1000 genomes]
rs2841537	0.98[ASN][1000 genomes]
rs2841539	0.84[ASN][1000 genomes]
rs2841540	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2841542	0.98[ASN][1000 genomes]
rs2841543	0.98[ASN][1000 genomes]
rs2841544	0.98[ASN][1000 genomes]
rs2841545	0.98[ASN][1000 genomes]
rs4340988	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4512205	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4715370	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4715371	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4715372	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4715373	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4715374	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4715376	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4715379	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4715380	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59610068	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60499941	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6458898	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6923024	0.88[ASN][1000 genomes]
rs6939496	0.88[ASN][1000 genomes]
rs7758810	0.80[EUR][1000 genomes]
rs9367502	0.85[EUR][1000 genomes]
rs9370167	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9370168	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9370171	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9370172	0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9382154	0.85[EUR][1000 genomes]
rs9382156	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9382170	0.99[ASN][1000 genomes]
rs9382172	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9382174	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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
3	nsv462640	chr6:13426539-13519434	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv600994	chr6:13426539-13519434	Bivalent/Poised TSS Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv470802	chr6:13441424-13519371	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13496800-13505400	Weak transcription	Left Ventricle	heart
2	chr6:13499800-13504600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:13500200-13512600	Weak transcription	Small Intestine	intestine
4	chr6:13503400-13505400	Weak transcription	Right Atrium	heart
5	chr6:13504400-13505600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr6:13504400-13505800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr6:13504400-13505800	Enhancers	HUVEC	blood vessel

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