Variant report

Variant	rs2024885
Chromosome Location	chr20:21917393-21917394
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 166 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:157)

rs_ID	r²[population]
rs1000334	0.83[EUR][1000 genomes]
rs1007169	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1014883	0.84[EUR][1000 genomes]
rs1014884	0.84[EUR][1000 genomes]
rs1014885	0.84[EUR][1000 genomes]
rs1155710	0.83[EUR][1000 genomes]
rs11699227	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13039748	0.83[EUR][1000 genomes]
rs1474928	0.80[EUR][1000 genomes]
rs1535199	0.83[EUR][1000 genomes]
rs1535200	0.83[EUR][1000 genomes]
rs1535201	0.83[EUR][1000 genomes]
rs1535202	0.83[EUR][1000 genomes]
rs1555264	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1555265	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs169311	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1884588	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1884589	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1884590	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1884595	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1980551	0.88[EUR][1000 genomes]
rs1980552	0.86[EUR][1000 genomes]
rs1980571	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1986765	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1988545	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1998076	0.86[EUR][1000 genomes]
rs2009652	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2010733	0.83[EUR][1000 genomes]
rs201547	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs201548	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2016964	0.83[EUR][1000 genomes]
rs2180438	0.84[EUR][1000 genomes]
rs2180439	0.85[EUR][1000 genomes]
rs2208050	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2208051	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2208052	0.83[EUR][1000 genomes]
rs2208054	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2208055	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2254540	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2281526	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2328678	0.85[EUR][1000 genomes]
rs2328679	0.85[EUR][1000 genomes]
rs2328680	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2328681	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2328682	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2328683	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2328684	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2424418	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2424419	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2424421	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2424423	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2424427	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2876614	0.83[EUR][1000 genomes]
rs3818179	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3818180	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3818181	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3818182	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3818183	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4390829	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4405823	0.83[EUR][1000 genomes]
rs4544515	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4815071	0.83[EUR][1000 genomes]
rs4815072	0.83[EUR][1000 genomes]
rs4815073	0.83[EUR][1000 genomes]
rs4815076	0.85[EUR][1000 genomes]
rs4815080	0.85[EUR][1000 genomes]
rs4815081	0.85[EUR][1000 genomes]
rs4815082	0.85[EUR][1000 genomes]
rs6035961	0.83[EUR][1000 genomes]
rs6035968	0.84[EUR][1000 genomes]
rs6035969	0.83[EUR][1000 genomes]
rs6035970	0.84[EUR][1000 genomes]
rs6035980	0.85[EUR][1000 genomes]
rs6035982	0.87[EUR][1000 genomes]
rs6035988	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6036003	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6036007	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6047660	0.83[EUR][1000 genomes]
rs6047661	0.83[EUR][1000 genomes]
rs6047662	0.82[EUR][1000 genomes]
rs6047663	0.83[EUR][1000 genomes]
rs6047676	0.83[EUR][1000 genomes]
rs6047677	0.84[EUR][1000 genomes]
rs6047679	0.84[EUR][1000 genomes]
rs6047681	0.84[EUR][1000 genomes]
rs6047682	0.85[EUR][1000 genomes]
rs6047683	0.85[EUR][1000 genomes]
rs6047684	0.85[EUR][1000 genomes]
rs6047691	0.84[EUR][1000 genomes]
rs6047692	0.85[EUR][1000 genomes]
rs6047694	0.85[EUR][1000 genomes]
rs6047705	0.85[EUR][1000 genomes]
rs6047709	0.87[EUR][1000 genomes]
rs6047713	0.87[EUR][1000 genomes]
rs6047714	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6047715	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6047728	0.89[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6047729	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6047730	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6047731	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6047732	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6047733	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6047743	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6047744	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6047745	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6047748	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6047749	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6047768	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6047769	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6047798	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6075843	0.83[EUR][1000 genomes]
rs6075852	0.84[EUR][1000 genomes]
rs6075853	0.84[EUR][1000 genomes]
rs6075854	0.84[EUR][1000 genomes]
rs6075855	0.84[EUR][1000 genomes]
rs6075858	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6075861	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6082524	0.83[EUR][1000 genomes]
rs6082525	0.83[EUR][1000 genomes]
rs6082533	0.84[EUR][1000 genomes]
rs6082540	0.85[EUR][1000 genomes]
rs6082541	0.84[EUR][1000 genomes]
rs6082553	0.85[EUR][1000 genomes]
rs6082556	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6082560	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6106421	0.83[EUR][1000 genomes]
rs6106438	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6113393	0.83[EUR][1000 genomes]
rs6113394	0.83[EUR][1000 genomes]
rs6113395	0.83[EUR][1000 genomes]
rs6113404	0.85[EUR][1000 genomes]
rs6113413	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6113414	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6113415	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6113416	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6113418	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6113424	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6113425	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6113431	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6113435	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6113456	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6137473	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6137476	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6515191	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs718664	0.84[EUR][1000 genomes]
rs7261950	0.82[EUR][1000 genomes]
rs761890	0.85[EUR][1000 genomes]
rs761891	0.85[EUR][1000 genomes]
rs764777	0.83[EUR][1000 genomes]
rs8116929	0.83[EUR][1000 genomes]
rs8121238	0.84[EUR][1000 genomes]
rs8122229	0.83[EUR][1000 genomes]
rs927059	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs932540	0.85[EUR][1000 genomes]
rs966604	0.85[EUR][1000 genomes]
rs987050	0.84[EUR][1000 genomes]
rs997078	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1058137	chr20:21549350-22295051	Weak transcription Bivalent Enhancer Active TSS Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv912814	chr20:21703615-21946928	Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv585714	chr20:21863397-21918447	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	n/a
4	nsv912815	chr20:21884693-21953649	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
5	nsv585715	chr20:21906780-21951847	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
6	nsv585716	chr20:21906780-21967950	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv585717	chr20:21917393-21949593	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats	TF binding region lncRNA	1 gene(s)	inside rSNPs	n/a
8	nsv458947	chr20:21917393-21961410	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
9	nsv585718	chr20:21917393-21961410	Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2024885	PLK1S1	cis	cerebellum	SCAN
rs2024885	CST1	cis	parietal	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:21904800-21918200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr20:21916600-21917400	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr20:21916600-21917600	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr20:21916800-21917600	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr20:21916800-21920000	Enhancers	HUES6 Cell Line	embryonic stem cell
6	chr20:21917000-21917400	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr20:21917000-21917600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
8	chr20:21917000-21917600	Enhancers	Muscle Satellite Cultured Cells	--
9	chr20:21917000-21917800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr20:21917000-21918600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr20:21917000-21918600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr20:21917000-21918600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr20:21917000-21919600	Enhancers	H1 Cell Line	embryonic stem cell
14	chr20:21917200-21917600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr20:21917200-21918000	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
16	chr20:21917200-21918400	Enhancers	iPS-15b Cell Line	embryonic stem cell
17	chr20:21917200-21919800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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