Variant report

Variant	rs12541698
Chromosome Location	chr8:34803940-34803941
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 99 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs10086170	0.94[ASN][1000 genomes]
rs10090404	0.91[ASN][1000 genomes]
rs10093451	0.91[ASN][1000 genomes]
rs10103839	0.94[ASN][1000 genomes]
rs10105027	0.97[ASN][1000 genomes]
rs10106900	0.92[ASN][1000 genomes]
rs10110471	0.86[ASN][1000 genomes]
rs10503971	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10755891	0.99[ASN][1000 genomes]
rs10755892	0.99[ASN][1000 genomes]
rs10954972	0.92[ASN][1000 genomes]
rs11989408	0.92[ASN][1000 genomes]
rs11992561	0.99[ASN][1000 genomes]
rs11995706	0.97[ASN][1000 genomes]
rs12542358	0.91[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs12543865	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap]
rs12544302	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12544746	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs12546149	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12548710	0.93[ASN][1000 genomes]
rs12549310	0.92[ASN][1000 genomes]
rs13439850	0.90[ASN][1000 genomes]
rs16883300	0.93[ASN][1000 genomes]
rs16883302	0.92[ASN][1000 genomes]
rs16883372	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16883443	0.86[ASN][1000 genomes]
rs1987259	0.88[ASN][1000 genomes]
rs28575744	0.91[ASN][1000 genomes]
rs28693643	0.99[ASN][1000 genomes]
rs4237081	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4313151	0.90[ASN][1000 genomes]
rs4361759	0.92[ASN][1000 genomes]
rs4368975	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs4422767	0.88[ASN][1000 genomes]
rs4474016	0.93[ASN][1000 genomes]
rs4474017	0.92[ASN][1000 genomes]
rs4484690	0.92[ASN][1000 genomes]
rs4487759	0.91[ASN][1000 genomes]
rs4503095	0.96[ASN][1000 genomes]
rs4513972	0.92[ASN][1000 genomes]
rs4520153	0.88[ASN][1000 genomes]
rs4521752	0.92[ASN][1000 genomes]
rs4551351	0.91[ASN][1000 genomes]
rs4557701	0.88[ASN][1000 genomes]
rs4590438	0.91[ASN][1000 genomes]
rs4604426	0.92[ASN][1000 genomes]
rs4607607	0.94[ASN][1000 genomes]
rs4631463	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4636203	0.94[ASN][1000 genomes]
rs4739292	0.96[ASN][1000 genomes]
rs4739378	0.90[ASN][1000 genomes]
rs4739383	0.93[ASN][1000 genomes]
rs4739384	0.92[ASN][1000 genomes]
rs4739385	0.92[ASN][1000 genomes]
rs4739386	0.92[ASN][1000 genomes]
rs4739387	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55780858	0.99[ASN][1000 genomes]
rs56065315	0.97[ASN][1000 genomes]
rs56238024	0.99[ASN][1000 genomes]
rs57260519	0.88[ASN][1000 genomes]
rs58253719	0.97[ASN][1000 genomes]
rs58943573	0.86[ASN][1000 genomes]
rs59565914	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs59781721	0.99[ASN][1000 genomes]
rs60954213	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61144179	0.97[ASN][1000 genomes]
rs6468297	0.93[ASN][1000 genomes]
rs6468298	0.92[ASN][1000 genomes]
rs6468299	0.92[ASN][1000 genomes]
rs6468300	0.91[ASN][1000 genomes]
rs6982801	0.91[ASN][1000 genomes]
rs6983798	0.96[ASN][1000 genomes]
rs6985526	0.92[ASN][1000 genomes]
rs6989491	0.88[ASN][1000 genomes]
rs6994259	0.92[ASN][1000 genomes]
rs6995319	0.91[ASN][1000 genomes]
rs6996639	0.94[ASN][1000 genomes]
rs6998588	0.88[ASN][1000 genomes]
rs7000626	0.93[ASN][1000 genomes]
rs7002561	0.89[ASN][1000 genomes]
rs7005848	0.93[ASN][1000 genomes]
rs7009820	0.92[ASN][1000 genomes]
rs7014169	0.95[ASN][1000 genomes]
rs73671417	0.92[ASN][1000 genomes]
rs73671420	0.92[ASN][1000 genomes]
rs7819172	0.92[ASN][1000 genomes]
rs7819315	0.92[ASN][1000 genomes]
rs7819466	0.92[ASN][1000 genomes]
rs7820772	0.92[ASN][1000 genomes]
rs7821357	0.91[ASN][1000 genomes]
rs7831249	0.92[ASN][1000 genomes]
rs7831645	0.94[ASN][1000 genomes]
rs7832238	0.92[ASN][1000 genomes]
rs7841333	0.95[ASN][1000 genomes]
rs9656770	0.88[ASN][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	nsv890716	chr8:34707436-34822797	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv1017085	chr8:34742896-35594241	Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv539546	chr8:34742896-35594241	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv517950	chr8:34797403-34803940	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:34801200-34804800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr8:34801800-34804400	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr8:34802000-34804400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr8:34802400-34804000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr8:34803000-34804000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr8:34803800-34804400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr8:34803800-34804600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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