Variant report

Variant	rs62413552
Chromosome Location	chr6:56034368-56034369
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr6:56034247-56034551	MCF10A-Er-Src	breast:	n/a	chr6:56034410-56034420 chr6:56034411-56034419 chr6:56034411-56034418
2	FOS	chr6:56034236-56034598	MCF10A-Er-Src	breast:	n/a	chr6:56034410-56034420 chr6:56034411-56034419 chr6:56034411-56034418
3	FOS	chr6:56034254-56034573	MCF10A-Er-Src	breast:	n/a	chr6:56034410-56034420 chr6:56034411-56034419 chr6:56034411-56034418

Variant related genes	Relation type
COL21A1	TF binding region

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10484705	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10484706	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10484707	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10484708	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10807509	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12154070	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12190240	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12193215	0.98[EUR][1000 genomes]
rs12193262	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12194691	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12195034	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12196208	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12196632	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12197715	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12201639	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12202221	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12202885	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12202972	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12203971	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12204894	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12206360	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12206617	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12207093	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12207333	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12207447	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12207650	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12208804	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12209422	1.00[ASN][1000 genomes]
rs12209452	1.00[ASN][1000 genomes]
rs12214023	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12214985	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12216230	1.00[ASN][1000 genomes]
rs17221418	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17222493	1.00[ASN][1000 genomes]
rs17821163	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1925146	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1925150	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1925151	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1925168	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1925183	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764061	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2840999	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28452747	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4326238	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61465988	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61524954	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62411454	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62411866	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62411869	1.00[ASN][1000 genomes]
rs62411870	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62412798	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62412802	1.00[ASN][1000 genomes]
rs62413463	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62413464	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62413466	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62413468	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62413482	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62413546	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62413548	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62413549	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62413553	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62413554	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62413555	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6459150	1.00[ASN][1000 genomes]
rs7742633	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7771018	1.00[ASN][1000 genomes]
rs885631	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs990188	1.00[ASN][1000 genomes]
rs990189	1.00[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	nsv1034037	chr6:55222409-56069600	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv885911	chr6:55789704-56143231	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:55984000-56037000	Weak transcription	Fetal Kidney	kidney
2	chr6:56013000-56036400	Weak transcription	Colon Smooth Muscle	Colon
3	chr6:56021800-56035800	Weak transcription	Fetal Muscle Trunk	muscle
4	chr6:56021800-56036800	Weak transcription	Placenta	Placenta
5	chr6:56021800-56053200	Weak transcription	Aorta	Aorta
6	chr6:56028800-56035400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr6:56032000-56035000	Weak transcription	Fetal Lung	lung
8	chr6:56033200-56034400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr6:56033400-56034400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr6:56033400-56034600	Enhancers	HMEC	breast
11	chr6:56033400-56034600	Enhancers	NHEK	skin
12	chr6:56033400-56035400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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