Variant report

Variant	rs12876221
Chromosome Location	chr13:94485010-94485011
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1330461	0.89[EUR][1000 genomes]
rs1330462	0.89[EUR][1000 genomes]
rs1330466	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1330467	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1360300	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1411501	0.87[EUR][1000 genomes]
rs1411506	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1411511	0.84[EUR][1000 genomes]
rs2150125	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2183427	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2183429	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2389049	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2389050	0.91[EUR][1000 genomes]
rs34095369	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3759424	0.89[EUR][1000 genomes]
rs4272893	0.84[EUR][1000 genomes]
rs61964368	0.85[EUR][1000 genomes]
rs6492680	0.88[EUR][1000 genomes]
rs6492681	0.85[EUR][1000 genomes]
rs71203705	0.90[EUR][1000 genomes]
rs7324433	0.88[EUR][1000 genomes]
rs7328659	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7337988	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7983687	0.84[EUR][1000 genomes]
rs7993741	0.80[EUR][1000 genomes]
rs7995578	0.80[EUR][1000 genomes]
rs8001985	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs8002684	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs913942	0.88[EUR][1000 genomes]
rs9301908	0.84[EUR][1000 genomes]
rs9516292	0.90[EUR][1000 genomes]
rs9524210	0.88[EUR][1000 genomes]
rs9524211	0.88[EUR][1000 genomes]
rs9524246	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9524260	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9524273	0.80[EUR][1000 genomes]
rs9556335	0.85[EUR][1000 genomes]
rs9589863	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs991432	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs991595	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948714	chr13:94100104-94699435	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv933807	chr13:94187158-94845505	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1045230	chr13:94277683-94764671	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv832684	chr13:94379507-94550853	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv948455	chr13:94451368-94988900	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv934193	chr13:94462018-94493268	Weak transcription Enhancers Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12876221	GPC6	cis	Artery Aorta	GTEx

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:94479200-94495400	Weak transcription	Ovary	ovary
2	chr13:94482800-94486600	Weak transcription	Fetal Heart	heart
3	chr13:94483600-94495800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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