Variant report

Variant	rs13200342
Chromosome Location	chr6:39502578-39502579
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10484823	0.95[EUR][1000 genomes]
rs11751847	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11752175	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11752438	0.82[ASN][1000 genomes]
rs11754807	0.82[ASN][1000 genomes]
rs11754808	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11755434	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11757080	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11759743	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12525519	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12528130	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13209820	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13213322	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13213488	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1536700	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16892194	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34081723	0.95[EUR][1000 genomes]
rs34720944	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35516457	0.95[EUR][1000 genomes]
rs4714258	0.95[EUR][1000 genomes]
rs4714261	0.93[EUR][1000 genomes]
rs55749620	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56713174	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6458119	0.93[EUR][1000 genomes]
rs6905995	0.93[EUR][1000 genomes]
rs6913556	0.95[EUR][1000 genomes]
rs6927837	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6928195	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6928537	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6942056	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71571377	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73732138	0.96[EUR][1000 genomes]
rs73732153	0.95[EUR][1000 genomes]
rs7751353	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7751706	0.93[EUR][1000 genomes]
rs7751942	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7754249	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7771470	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7774528	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296301	0.95[EUR][1000 genomes]
rs9471123	0.96[EUR][1000 genomes]
rs9471124	0.96[EUR][1000 genomes]
rs9471129	0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885822	chr6:39327708-39721216	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv885823	chr6:39421715-39526867	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39488600-39509400	Weak transcription	Brain Substantia Nigra	brain
2	chr6:39495200-39511000	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr6:39498400-39509400	Weak transcription	Brain Hippocampus Middle	brain
4	chr6:39498600-39510600	Weak transcription	Rectal Smooth Muscle	rectum

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