Variant report

Variant	rs35642348
Chromosome Location	chr20:24639363-24639364
allele	A/C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 85 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs12624767	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12625030	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13039543	0.82[EUR][1000 genomes]
rs13040844	0.91[EUR][1000 genomes]
rs13040961	0.85[ASN][1000 genomes]
rs13041031	0.85[ASN][1000 genomes]
rs13045305	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13045365	0.85[ASN][1000 genomes]
rs2006215	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2092622	0.93[EUR][1000 genomes]
rs2223827	0.93[EUR][1000 genomes]
rs34025188	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34125356	0.81[EUR][1000 genomes]
rs34219444	0.93[EUR][1000 genomes]
rs34439537	0.93[EUR][1000 genomes]
rs34639647	0.81[EUR][1000 genomes]
rs34988127	0.93[EUR][1000 genomes]
rs35116461	0.81[EUR][1000 genomes]
rs35129087	0.93[EUR][1000 genomes]
rs35268179	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35517542	0.81[EUR][1000 genomes]
rs35646552	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35737177	0.93[EUR][1000 genomes]
rs35830266	0.90[EUR][1000 genomes]
rs35832827	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35910989	0.81[EUR][1000 genomes]
rs36039857	0.93[EUR][1000 genomes]
rs36102356	0.81[EUR][1000 genomes]
rs3746326	0.82[ASN][1000 genomes]
rs3746328	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3813914	0.82[EUR][1000 genomes]
rs3813915	0.93[EUR][1000 genomes]
rs4140548	0.93[EUR][1000 genomes]
rs4140549	0.93[EUR][1000 genomes]
rs4347916	0.93[EUR][1000 genomes]
rs4513358	0.93[EUR][1000 genomes]
rs4514953	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56067039	0.81[EUR][1000 genomes]
rs56227934	0.93[EUR][1000 genomes]
rs56235927	0.93[EUR][1000 genomes]
rs58773516	0.93[EUR][1000 genomes]
rs59954369	0.93[EUR][1000 genomes]
rs6036865	0.91[EUR][1000 genomes]
rs6036866	0.93[EUR][1000 genomes]
rs6036867	0.93[EUR][1000 genomes]
rs6036870	0.93[EUR][1000 genomes]
rs6036871	0.93[EUR][1000 genomes]
rs6036872	0.93[EUR][1000 genomes]
rs6036878	0.93[EUR][1000 genomes]
rs6049845	0.88[EUR][1000 genomes]
rs6049846	0.93[EUR][1000 genomes]
rs6049847	0.93[EUR][1000 genomes]
rs6049849	0.93[EUR][1000 genomes]
rs6049851	0.87[EUR][1000 genomes]
rs6049859	0.92[EUR][1000 genomes]
rs6049861	0.90[EUR][1000 genomes]
rs6049863	0.93[EUR][1000 genomes]
rs6049868	0.93[EUR][1000 genomes]
rs6049869	0.93[EUR][1000 genomes]
rs6049870	0.93[EUR][1000 genomes]
rs6049871	0.93[EUR][1000 genomes]
rs6049872	0.93[EUR][1000 genomes]
rs6049873	0.93[EUR][1000 genomes]
rs6049874	0.93[EUR][1000 genomes]
rs6049876	0.93[EUR][1000 genomes]
rs66630249	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs66640525	0.93[EUR][1000 genomes]
rs66725814	0.93[EUR][1000 genomes]
rs67848178	0.85[EUR][1000 genomes]
rs729540	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs735186	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs742804	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs742807	0.93[EUR][1000 genomes]
rs742808	0.93[EUR][1000 genomes]
rs742809	0.93[EUR][1000 genomes]
rs761439	0.93[EUR][1000 genomes]
rs8117582	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8117680	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8124800	0.93[EUR][1000 genomes]
rs880502	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv9793	chr20:23939613-24734850	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	esv3332519	chr20:24535099-24815615	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv912824	chr20:24612808-24639916	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
4	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
5	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

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24616200-24639600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr20:24620000-24641200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr20:24629200-24642600	Weak transcription	Right Atrium	heart
4	chr20:24629400-24641000	Weak transcription	Right Ventricle	heart
5	chr20:24631000-24639600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr20:24631000-24639800	Weak transcription	Brain Angular Gyrus	brain
7	chr20:24631200-24639600	Weak transcription	Brain Cingulate Gyrus	brain
8	chr20:24634600-24648800	Weak transcription	Gastric	stomach
9	chr20:24637200-24639800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr20:24637200-24641200	Enhancers	Muscle Satellite Cultured Cells	--
11	chr20:24637400-24640200	Enhancers	Fetal Muscle Leg	muscle
12	chr20:24637600-24639400	Enhancers	NH-A	brain
13	chr20:24638400-24640000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
14	chr20:24638600-24640000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr20:24638600-24640400	Enhancers	Brain Hippocampus Middle	brain
16	chr20:24638600-24641600	Enhancers	Brain Substantia Nigra	brain
17	chr20:24638600-24643400	Weak transcription	Fetal Kidney	kidney
18	chr20:24639000-24650400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr20:24639200-24639600	Enhancers	Brain Germinal Matrix	brain
20	chr20:24639200-24639600	Bivalent Enhancer	HSMMtube	muscle
21	chr20:24639200-24641400	Enhancers	Brain Anterior Caudate	brain
22	chr20:24639200-24648600	Weak transcription	Spleen	Spleen

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