Variant report

Variant	rs6036946
Chromosome Location	chr20:24851823-24851824
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 124 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:116)

rs_ID	r²[population]
rs1029031	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1029032	1.00[ASN][1000 genomes]
rs1029033	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11087480	1.00[ASN][1000 genomes]
rs1113872	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1122607	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11697463	0.84[EUR][1000 genomes]
rs11700139	0.84[EUR][1000 genomes]
rs11700161	0.84[EUR][1000 genomes]
rs11905160	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11906401	1.00[ASN][1000 genomes]
rs11906511	1.00[ASN][1000 genomes]
rs12151907	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1331285	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1331290	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1411892	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1411894	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1411895	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1413069	0.88[EUR][1000 genomes]
rs1571772	0.81[EUR][1000 genomes]
rs1831483	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1888655	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2064404	1.00[CHB][hapmap]
rs4239751	1.00[CHB][hapmap]
rs4815358	1.00[CHB][hapmap]
rs4815359	1.00[CHB][hapmap]
rs55702326	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55905952	0.88[EUR][1000 genomes]
rs55979003	0.88[EUR][1000 genomes]
rs56000345	0.82[EUR][1000 genomes]
rs56053259	1.00[ASN][1000 genomes]
rs56106395	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56148678	1.00[ASN][1000 genomes]
rs56179484	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6036915	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6036939	1.00[ASN][1000 genomes]
rs6036943	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6036948	1.00[ASN][1000 genomes]
rs6036951	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6036955	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6036967	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6036968	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6036969	1.00[ASN][1000 genomes]
rs6036970	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6036971	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6036972	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6049996	0.88[EUR][1000 genomes]
rs6050000	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050002	0.88[EUR][1000 genomes]
rs6050007	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050026	1.00[ASN][1000 genomes]
rs6050051	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050052	1.00[ASN][1000 genomes]
rs6050056	1.00[ASN][1000 genomes]
rs6050058	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050066	1.00[ASN][1000 genomes]
rs6050070	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050073	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050074	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050111	1.00[ASN][1000 genomes]
rs6050114	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050115	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050116	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050117	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050119	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050120	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050122	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6050125	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6076279	0.86[EUR][1000 genomes]
rs6076281	0.88[EUR][1000 genomes]
rs6076283	0.88[EUR][1000 genomes]
rs6076290	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6076292	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6083628	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6083630	0.86[EUR][1000 genomes]
rs6083631	0.88[EUR][1000 genomes]
rs6083632	0.88[EUR][1000 genomes]
rs6083633	0.87[EUR][1000 genomes]
rs6083638	1.00[ASN][1000 genomes]
rs6083647	1.00[ASN][1000 genomes]
rs6083648	1.00[ASN][1000 genomes]
rs6083649	1.00[ASN][1000 genomes]
rs6083652	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6083656	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6083658	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6083672	0.81[AMR][1000 genomes]
rs6083697	1.00[CHB][hapmap]
rs6083714	1.00[CHB][hapmap]
rs6106963	1.00[ASN][1000 genomes]
rs6106968	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6106969	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6114915	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6114918	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6114921	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62215817	0.81[EUR][1000 genomes]
rs62215819	0.82[EUR][1000 genomes]
rs62215820	0.81[EUR][1000 genomes]
rs62215821	0.81[EUR][1000 genomes]
rs62215822	0.82[EUR][1000 genomes]
rs62215823	0.86[EUR][1000 genomes]
rs62215824	0.88[EUR][1000 genomes]
rs62215826	0.88[EUR][1000 genomes]
rs62215832	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6515538	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7262604	0.88[EUR][1000 genomes]
rs7269852	0.81[EUR][1000 genomes]
rs73101427	0.82[EUR][1000 genomes]
rs73337207	0.81[EUR][1000 genomes]
rs7509561	0.84[EUR][1000 genomes]
rs761368	1.00[CHB][hapmap]
rs765834	1.00[CHB][hapmap]
rs8117102	0.88[EUR][1000 genomes]
rs8117164	0.88[EUR][1000 genomes]
rs914308	1.00[ASN][1000 genomes]
rs914310	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs914311	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1061412	chr20:24629468-24887869	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv544216	chr20:24629468-24887869	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1061455	chr20:24733120-24861801	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv544218	chr20:24733120-24861801	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1062140	chr20:24807962-25304054	Strong transcription Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
6	nsv544219	chr20:24807962-25304054	Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
7	nsv1056345	chr20:24819570-25168159	Flanking Active TSS Bivalent Enhancer Enhancers Strong transcription Flanking Bivalent TSS/Enh Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
8	nsv1055341	chr20:24848416-25302271	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24851200-24852200	Enhancers	Fetal Kidney	kidney
2	chr20:24851200-24853200	Enhancers	Brain Hippocampus Middle	brain
3	chr20:24851400-24852200	Bivalent Enhancer	HepG2	liver
4	chr20:24851400-24852400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr20:24851400-24852400	Enhancers	Spleen	Spleen
6	chr20:24851400-24853200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr20:24851400-24854200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr20:24851400-24854200	Enhancers	GM12878-XiMat	blood
9	chr20:24851600-24852000	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
10	chr20:24851600-24852400	Enhancers	Brain Cingulate Gyrus	brain
11	chr20:24851600-24853200	Enhancers	Fetal Brain Male	brain
12	chr20:24851600-24853200	Enhancers	Fetal Lung	lung
13	chr20:24851800-24852000	Enhancers	Primary hematopoietic stem cells short term culture	blood
14	chr20:24851800-24852200	Enhancers	Primary B cells from peripheral blood	blood
15	chr20:24851800-24853000	Enhancers	Brain Angular Gyrus	brain
16	chr20:24851800-24853000	Enhancers	Brain Inferior Temporal Lobe	brain
17	chr20:24851800-24853000	Weak transcription	Esophagus	oesophagus
18	chr20:24851800-24854000	Enhancers	Fetal Thymus	thymus

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