Variant report

Variant	rs17573052
Chromosome Location	chr12:60215973-60215974
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10783997	0.97[EUR][1000 genomes]
rs10877330	0.94[CEU][hapmap];0.85[GIH][hapmap]
rs10877332	0.94[CEU][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs10877333	0.94[CEU][hapmap];0.95[GIH][hapmap];1.00[LWK][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[EUR][1000 genomes]
rs10877334	1.00[YRI][hapmap];0.99[EUR][1000 genomes]
rs10877348	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11173115	0.94[CEU][hapmap]
rs11173121	0.94[CEU][hapmap];0.95[GIH][hapmap];1.00[LWK][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.84[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs11173138	0.94[CEU][hapmap];0.95[GIH][hapmap];1.00[LWK][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs11173183	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11173186	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11611304	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11611808	0.84[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs12581981	0.84[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs17572569	0.95[AFR][1000 genomes];0.80[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17650140	0.94[CEU][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs4323908	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs55863604	0.84[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs55869967	0.84[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs56410712	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73113308	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7972065	0.81[AMR][1000 genomes];0.90[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	nsv869425	chr12:59746898-60479741	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	esv3365928	chr12:60042531-60343212	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv899134	chr12:60141518-60263723	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv899135	chr12:60156046-60228610	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv559102	chr12:60164408-60221898	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17573052	GPR84	cis	cerebellum	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:60215200-60216800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr12:60215800-60217000	Weak transcription	NHDF-Ad	bronchial

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