Variant report

Variant	rs57955071
Chromosome Location	chr2:40963082-40963083
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs11124754	0.81[ASN][1000 genomes]
rs11124756	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11491284	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11689010	0.91[ASN][1000 genomes]
rs11887013	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11898380	0.83[ASN][1000 genomes]
rs11899009	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12469563	0.90[ASN][1000 genomes]
rs12474948	0.85[EUR][1000 genomes]
rs12477643	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12712704	0.84[ASN][1000 genomes]
rs12712709	0.91[ASN][1000 genomes]
rs1541575	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17026319	0.85[EUR][1000 genomes]
rs17026434	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17026446	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17026537	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17026541	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17026544	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17026584	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17026612	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17026616	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17026644	0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1861307	0.87[ASN][1000 genomes]
rs1990617	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2005413	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2052260	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2160262	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2216043	0.91[ASN][1000 genomes]
rs2888699	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3911438	0.86[ASN][1000 genomes]
rs3915716	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs42787	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4597578	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4610094	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4952643	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4952644	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs5022306	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56407568	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57225071	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs57569001	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57770208	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs57988012	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59892061	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60373384	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61275311	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6544345	0.83[ASN][1000 genomes]
rs72945712	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72953426	0.90[AFR][1000 genomes]
rs7369946	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7369960	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7423585	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7581499	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7608684	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873911	chr2:40423454-41161464	ZNF genes & repeats Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv873917	chr2:40710953-41015998	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv528865	chr2:40805427-41218810	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv873925	chr2:40835285-40966719	Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
5	nsv873926	chr2:40835285-40986860	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv873927	chr2:40835285-41034225	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv470455	chr2:40835285-41059164	Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv873928	chr2:40835285-41075134	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv873929	chr2:40835285-41180690	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv873931	chr2:40869165-40966719	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
11	nsv456441	chr2:40882402-41064824	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv581514	chr2:40882402-41064824	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv456452	chr2:40890416-40989061	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
14	nsv581515	chr2:40890416-40989061	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
15	esv2756918	chr2:40930721-40966719	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
16	esv2759045	chr2:40930721-40966719	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
17	nsv963911	chr2:40950223-40971701	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:40949400-40973200	Weak transcription	HSMMtube	muscle
2	chr2:40960400-40963800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr2:40961000-40964000	Enhancers	Muscle Satellite Cultured Cells	--
4	chr2:40961400-40963600	Enhancers	HSMM	muscle
5	chr2:40962800-40963200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr2:40962800-40963200	Enhancers	Placenta	Placenta
7	chr2:40963000-40964200	Weak transcription	Osteobl	bone

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