Variant report

Variant	rs12521033
Chromosome Location	chr5:49441808-49441809
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 82 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10053631	0.91[ASN][1000 genomes]
rs10053639	0.90[ASN][1000 genomes]
rs10054827	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10067381	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10471767	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10471784	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10940090	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10940514	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10940520	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10940533	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10940646	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11740458	0.91[ASN][1000 genomes]
rs11747651	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11748483	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11953016	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12188257	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12515555	0.81[EUR][1000 genomes]
rs12521333	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12521903	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13160767	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13175165	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13358828	0.81[ASN][1000 genomes]
rs2125456	0.83[ASN][1000 genomes]
rs2168922	0.84[ASN][1000 genomes]
rs2199089	0.81[ASN][1000 genomes]
rs2199093	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2353222	0.91[ASN][1000 genomes]
rs35295454	0.89[ASN][1000 genomes]
rs4249603	0.93[ASN][1000 genomes]
rs4250165	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4302633	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4379243	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4415115	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4446513	0.92[ASN][1000 genomes]
rs4865549	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4865550	0.92[ASN][1000 genomes]
rs4865551	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4865552	0.89[ASN][1000 genomes]
rs4865567	0.81[ASN][1000 genomes]
rs4865722	0.82[EUR][1000 genomes]
rs4865723	0.81[EUR][1000 genomes]
rs4865727	0.94[ASN][1000 genomes]
rs4865728	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4865778	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4865799	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4865801	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4865803	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4865966	0.81[AMR][1000 genomes]
rs4866006	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs55815545	0.85[ASN][1000 genomes]
rs7293304	0.80[ASN][1000 genomes]
rs7293312	0.80[EUR][1000 genomes]
rs7293348	0.83[ASN][1000 genomes]
rs7293351	0.83[ASN][1000 genomes]
rs7293378	0.82[ASN][1000 genomes]
rs7293410	0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7293414	0.85[ASN][1000 genomes]
rs7293422	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7293432	0.82[ASN][1000 genomes]
rs7293476	0.83[ASN][1000 genomes]
rs7293501	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8175378	0.87[ASN][1000 genomes]
rs8185119	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8185347	0.81[ASN][1000 genomes]
rs8188146	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8188195	0.88[ASN][1000 genomes]
rs8188203	0.92[ASN][1000 genomes]
rs8188289	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9688065	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9688258	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9800135	0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3334856	chr5:49405642-49442693	Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS	n/a	n/a	inside rSNPs	n/a
2	esv3353509	chr5:49405642-49442693	ZNF genes & repeats Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS	n/a	n/a	inside rSNPs	n/a
3	esv3365495	chr5:49405642-49442693	ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Enhancers Bivalent Enhancer	n/a	n/a	inside rSNPs	n/a
4	esv3403552	chr5:49405642-49442693	ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Bivalent Enhancer Active TSS	n/a	n/a	inside rSNPs	n/a
5	esv3451841	chr5:49405642-49442693	ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Active TSS Bivalent Enhancer	n/a	n/a	inside rSNPs	n/a
6	esv17894	chr5:49405763-49442098	ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer	n/a	n/a	inside rSNPs	n/a
7	esv19415	chr5:49405763-49485157	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS	n/a	n/a	inside rSNPs	diseases
8	nsv820439	chr5:49405763-49552643	ZNF genes & repeats Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	esv15107	chr5:49405763-49562327	Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
10	esv2760950	chr5:49432831-49624358	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv598089	chr5:49441601-49547088	ZNF genes & repeats Active TSS Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs12521033	EMB	cis	Thyroid	GTEx
rs12521033	EMB	cis	Skin Sun Exposed Lower leg	GTEx
rs12521033	EMB	cis	Whole Blood	GTEx

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:49440000-49442200	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
2	chr5:49441400-49442800	Weak transcription	Brain Hippocampus Middle	brain
3	chr5:49441400-49442800	Weak transcription	HSMMtube	muscle
4	chr5:49441400-49447800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr5:49441400-49447800	Weak transcription	GM12878-XiMat	blood
6	chr5:49441400-49448800	Weak transcription	Fetal Heart	heart
7	chr5:49441400-49450400	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr5:49441400-49450400	Weak transcription	Hela-S3	cervix
9	chr5:49441400-49450400	Weak transcription	NH-A	brain
10	chr5:49441400-49450400	Weak transcription	NHEK	skin
11	chr5:49441400-49450400	Weak transcription	Osteobl	bone

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