Variant report

Variant	rs2560784
Chromosome Location	chr6:13512656-13512657
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:13509314..13512710-chr6:13515099..13518078,3	MCF-7	breast:
2	chr6:13508787..13510378-chr6:13511004..13513571,2	K562	blood:
3	chr6:13355838..13357537-chr6:13511461..13514141,2	K562	blood:
4	chr6:13493859..13496685-chr6:13512133..13514978,2	K562	blood:
5	chr6:13511916..13513600-chr6:13535489..13538424,2	K562	blood:

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs2081874	0.82[EUR][1000 genomes]
rs2434397	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2434398	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2494775	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2560764	0.86[EUR][1000 genomes]
rs2560767	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2560769	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2560774	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2560775	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2560776	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2560777	0.97[ASN][1000 genomes]
rs2560778	0.97[ASN][1000 genomes]
rs2560780	0.97[ASN][1000 genomes]
rs2560781	0.97[ASN][1000 genomes]
rs2560786	0.97[ASN][1000 genomes]
rs2560787	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2560789	0.99[ASN][1000 genomes]
rs2560790	0.99[ASN][1000 genomes]
rs2560791	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2560793	0.99[ASN][1000 genomes]
rs2560794	0.96[ASN][1000 genomes]
rs2560796	0.99[ASN][1000 genomes]
rs2560797	0.99[ASN][1000 genomes]
rs2560798	0.98[ASN][1000 genomes]
rs2560799	0.96[ASN][1000 genomes]
rs2560800	0.89[ASN][1000 genomes]
rs2560802	0.97[ASN][1000 genomes]
rs2560803	0.87[ASN][1000 genomes]
rs2560804	0.97[ASN][1000 genomes]
rs2560805	0.97[ASN][1000 genomes]
rs2560806	0.97[ASN][1000 genomes]
rs2841504	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2841526	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2841527	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2841528	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2841530	0.96[ASN][1000 genomes]
rs2841531	0.92[ASN][1000 genomes]
rs2841532	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2841533	0.99[ASN][1000 genomes]
rs2841535	0.99[ASN][1000 genomes]
rs2841536	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2841537	0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2841539	0.85[ASN][1000 genomes]
rs2841540	0.99[ASN][1000 genomes]
rs2841542	0.97[ASN][1000 genomes]
rs2841543	0.97[ASN][1000 genomes]
rs2841544	0.97[ASN][1000 genomes]
rs2841545	0.97[ASN][1000 genomes]
rs2841569	0.82[EUR][1000 genomes]
rs2841570	0.82[EUR][1000 genomes]
rs2841572	0.85[EUR][1000 genomes]
rs4340988	0.97[ASN][1000 genomes]
rs4512205	0.97[ASN][1000 genomes]
rs4715370	0.99[ASN][1000 genomes]
rs4715371	0.99[ASN][1000 genomes]
rs4715372	0.99[ASN][1000 genomes]
rs4715373	0.97[ASN][1000 genomes]
rs4715374	0.97[ASN][1000 genomes]
rs4715376	0.92[ASN][1000 genomes]
rs4715379	0.91[ASN][1000 genomes]
rs4715380	0.91[ASN][1000 genomes]
rs59610068	0.99[ASN][1000 genomes]
rs60499941	0.99[ASN][1000 genomes]
rs62387366	0.82[EUR][1000 genomes]
rs62387367	0.82[EUR][1000 genomes]
rs62387368	0.83[EUR][1000 genomes]
rs62387369	0.83[EUR][1000 genomes]
rs6458898	0.93[ASN][1000 genomes]
rs6923024	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6939496	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73723737	0.80[EUR][1000 genomes]
rs9370167	0.99[ASN][1000 genomes]
rs9370168	0.99[ASN][1000 genomes]
rs9370171	0.99[ASN][1000 genomes]
rs9370172	0.98[ASN][1000 genomes]
rs9382156	0.97[ASN][1000 genomes]
rs9382170	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9382172	0.99[ASN][1000 genomes]
rs9382174	0.96[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:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13510000-13513600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr6:13510200-13513600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr6:13511200-13512800	Enhancers	Right Ventricle	heart
4	chr6:13511200-13512800	Enhancers	Spleen	Spleen
5	chr6:13511400-13513000	Enhancers	Adipose Nuclei	Adipose
6	chr6:13511600-13512800	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
7	chr6:13511600-13512800	Enhancers	Fetal Muscle Leg	muscle
8	chr6:13511600-13513000	Enhancers	Fetal Muscle Trunk	muscle
9	chr6:13511800-13512800	Enhancers	Fetal Heart	heart
10	chr6:13511800-13512800	Enhancers	Fetal Stomach	stomach
11	chr6:13512000-13512800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr6:13512000-13512800	Enhancers	Stomach Smooth Muscle	stomach
13	chr6:13512000-13512800	Enhancers	NHLF	lung
14	chr6:13512400-13512800	Flanking Active TSS	Duodenum Mucosa	Duodenum
15	chr6:13512400-13512800	Enhancers	Lung	lung
16	chr6:13512400-13512800	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
17	chr6:13512400-13513000	Flanking Active TSS	Colonic Mucosa	Colon
18	chr6:13512400-13513000	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
19	chr6:13512400-13513000	Active TSS	Right Atrium	heart
20	chr6:13512400-13513200	Enhancers	Sigmoid Colon	Sigmoid Colon
21	chr6:13512600-13512800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr6:13512600-13512800	Enhancers	Small Intestine	intestine
23	chr6:13512600-13517000	Weak transcription	HUVEC	blood vessel

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