Variant report

Variant	rs6924016
Chromosome Location	chr6:114409122-114409123
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10456889	0.87[ASN][1000 genomes]
rs11153457	0.87[ASN][1000 genomes]
rs11153462	0.89[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs11153463	0.99[ASN][1000 genomes]
rs1154897	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1154898	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11752866	0.87[ASN][1000 genomes]
rs11752970	0.84[ASN][1000 genomes]
rs11756975	0.87[ASN][1000 genomes]
rs11966557	0.87[ASN][1000 genomes]
rs12196433	0.89[ASN][1000 genomes]
rs12199104	0.87[ASN][1000 genomes]
rs12205029	0.87[ASN][1000 genomes]
rs12212081	0.87[ASN][1000 genomes]
rs12661982	0.89[ASN][1000 genomes]
rs12662029	0.89[ASN][1000 genomes]
rs13194478	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13195526	0.87[ASN][1000 genomes]
rs13199435	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13201675	0.87[ASN][1000 genomes]
rs13203308	0.89[ASN][1000 genomes]
rs13203419	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13210690	0.89[ASN][1000 genomes]
rs13214829	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1334901	0.91[CHD][hapmap];0.89[ASN][1000 genomes]
rs1334902	0.89[ASN][1000 genomes]
rs1519685	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1519686	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1519687	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1519688	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17075821	0.91[CHD][hapmap];0.89[ASN][1000 genomes]
rs17075832	0.89[ASN][1000 genomes]
rs17075854	0.89[ASN][1000 genomes]
rs17189832	0.91[CHD][hapmap];0.89[ASN][1000 genomes]
rs17190808	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1879129	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1973731	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2292945	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34298844	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35080884	0.87[ASN][1000 genomes]
rs35166510	0.87[ASN][1000 genomes]
rs35275613	0.87[ASN][1000 genomes]
rs35680201	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35877583	0.99[ASN][1000 genomes]
rs35944188	0.87[ASN][1000 genomes]
rs36013742	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3897892	0.87[ASN][1000 genomes]
rs4311539	0.87[ASN][1000 genomes]
rs4371870	0.87[ASN][1000 genomes]
rs4463289	0.87[ASN][1000 genomes]
rs4604299	0.87[ASN][1000 genomes]
rs6568828	0.89[ASN][1000 genomes]
rs6904640	0.89[ASN][1000 genomes]
rs6916558	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6919170	0.99[ASN][1000 genomes]
rs6926298	0.89[ASN][1000 genomes]
rs6940137	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs71566758	0.87[ASN][1000 genomes]
rs71566761	0.89[ASN][1000 genomes]
rs7739113	0.89[ASN][1000 genomes]
rs7739597	0.87[ASN][1000 genomes]
rs7742511	0.87[ASN][1000 genomes]
rs7744242	0.89[ASN][1000 genomes]
rs7762446	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7772117	0.99[ASN][1000 genomes]
rs7772231	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs915202	0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.99[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024062	chr6:114311029-114679557	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	59 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6924016	SLC35F1	cis	cerebellum	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:114385600-114415800	Weak transcription	HSMM	muscle
2	chr6:114402400-114417800	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr6:114406800-114411800	Weak transcription	HSMMtube	muscle
4	chr6:114407000-114411800	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr6:114407200-114409200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr6:114407600-114411600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr6:114408200-114409200	Enhancers	Brain Substantia Nigra	brain
8	chr6:114408400-114409200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr6:114408800-114409200	Enhancers	Brain Inferior Temporal Lobe	brain
10	chr6:114408800-114411000	Weak transcription	Brain Hippocampus Middle	brain
11	chr6:114409000-114409200	Enhancers	Brain Anterior Caudate	brain
12	chr6:114409000-114409200	Enhancers	Brain Cingulate Gyrus	brain

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