Variant report

Variant	rs28608541
Chromosome Location	chr4:21490875-21490876
allele	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:81)

rs_ID	r²[population]
rs10002399	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10003390	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10003394	0.88[AFR][1000 genomes]
rs10007854	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10013379	1.00[EUR][1000 genomes]
rs10014758	0.84[AFR][1000 genomes]
rs10016199	1.00[EUR][1000 genomes]
rs10017100	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10019808	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10020195	0.82[AFR][1000 genomes]
rs10025003	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10027808	1.00[EUR][1000 genomes]
rs10030329	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10516391	1.00[EUR][1000 genomes]
rs12648670	0.88[AFR][1000 genomes]
rs1460479	1.00[EUR][1000 genomes]
rs1460480	1.00[EUR][1000 genomes]
rs1460481	1.00[EUR][1000 genomes]
rs1495514	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1495515	0.88[AFR][1000 genomes]
rs1580244	1.00[EUR][1000 genomes]
rs16871190	0.99[AFR][1000 genomes]
rs16871192	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16871195	0.99[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16871197	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16871198	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16871214	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16871216	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16871218	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16871238	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16871240	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16871241	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16871264	1.00[EUR][1000 genomes]
rs16871265	1.00[EUR][1000 genomes]
rs16871284	1.00[EUR][1000 genomes]
rs16871286	1.00[EUR][1000 genomes]
rs16871288	1.00[EUR][1000 genomes]
rs16871289	1.00[EUR][1000 genomes]
rs16871290	1.00[EUR][1000 genomes]
rs16871292	1.00[EUR][1000 genomes]
rs16871315	1.00[EUR][1000 genomes]
rs16871330	1.00[EUR][1000 genomes]
rs16871372	1.00[EUR][1000 genomes]
rs16871535	1.00[EUR][1000 genomes]
rs16871591	1.00[EUR][1000 genomes]
rs17307875	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1841368	0.84[AFR][1000 genomes]
rs1903321	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28374981	0.84[AFR][1000 genomes]
rs28483282	1.00[EUR][1000 genomes]
rs28493029	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28507957	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28533854	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28536057	1.00[EUR][1000 genomes]
rs28545343	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28558494	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28582299	1.00[EUR][1000 genomes]
rs28590371	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28594450	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28594626	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28600372	1.00[EUR][1000 genomes]
rs28601719	1.00[EUR][1000 genomes]
rs28621776	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28634569	1.00[EUR][1000 genomes]
rs28635194	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28659186	0.88[AFR][1000 genomes]
rs28673434	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28708392	1.00[EUR][1000 genomes]
rs5022624	0.85[AFR][1000 genomes]
rs6820184	0.84[AFR][1000 genomes]
rs6826428	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6827314	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6845225	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6849960	1.00[EUR][1000 genomes]
rs6850575	1.00[EUR][1000 genomes]
rs73107977	1.00[EUR][1000 genomes]
rs73109826	1.00[EUR][1000 genomes]
rs9991409	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9991717	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9994969	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9995812	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013365	chr4:20834054-21609078	Bivalent/Poised TSS Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
2	nsv829879	chr4:21418568-21611002	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
3	nsv998481	chr4:21421945-21608805	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
4	nsv527163	chr4:21490361-21494981	Strong transcription Enhancers Weak transcription	n/a	n/a	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:21487600-21492600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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