Variant report

Variant	rs9516308
Chromosome Location	chr13:94532889-94532890
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 107 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:100)

rs_ID	r²[population]
rs11617930	0.82[EUR][1000 genomes]
rs12876318	0.82[EUR][1000 genomes]
rs1330468	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1411509	0.81[EUR][1000 genomes]
rs1411513	0.89[EUR][1000 genomes]
rs1854730	0.82[EUR][1000 genomes]
rs1888230	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1888231	0.92[EUR][1000 genomes]
rs1888232	0.92[EUR][1000 genomes]
rs1983987	0.90[EUR][1000 genomes]
rs1983988	0.87[EUR][1000 genomes]
rs2008059	0.82[EUR][1000 genomes]
rs2183426	0.82[EUR][1000 genomes]
rs2183430	0.87[EUR][1000 genomes]
rs2210110	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2892666	0.82[EUR][1000 genomes]
rs3759422	0.82[EUR][1000 genomes]
rs3759423	0.82[EUR][1000 genomes]
rs3864992	0.82[EUR][1000 genomes]
rs3864993	0.82[EUR][1000 genomes]
rs3864994	0.82[EUR][1000 genomes]
rs4274304	0.82[EUR][1000 genomes]
rs4274305	0.82[EUR][1000 genomes]
rs4300503	0.82[EUR][1000 genomes]
rs4326909	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4486746	0.82[EUR][1000 genomes]
rs4548731	0.82[EUR][1000 genomes]
rs4556669	0.82[EUR][1000 genomes]
rs6416428	0.82[EUR][1000 genomes]
rs71207436	0.82[EUR][1000 genomes]
rs7317037	0.85[EUR][1000 genomes]
rs7317144	0.82[EUR][1000 genomes]
rs7320107	0.88[EUR][1000 genomes]
rs7320571	0.82[EUR][1000 genomes]
rs7326965	0.92[EUR][1000 genomes]
rs7329113	0.81[EUR][1000 genomes]
rs7329264	0.92[EUR][1000 genomes]
rs7983205	0.90[EUR][1000 genomes]
rs7986675	0.86[EUR][1000 genomes]
rs7989528	0.93[EUR][1000 genomes]
rs8001981	0.92[EUR][1000 genomes]
rs885192	0.81[EUR][1000 genomes]
rs928189	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9284274	0.87[EUR][1000 genomes]
rs9301912	0.85[EUR][1000 genomes]
rs9301913	0.91[EUR][1000 genomes]
rs9301914	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9301916	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9516286	0.81[EUR][1000 genomes]
rs9516287	0.82[EUR][1000 genomes]
rs9516289	0.82[EUR][1000 genomes]
rs9516301	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9516302	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9516306	0.86[EUR][1000 genomes]
rs9524212	0.81[EUR][1000 genomes]
rs9524214	0.82[EUR][1000 genomes]
rs9524215	0.81[EUR][1000 genomes]
rs9524216	0.82[EUR][1000 genomes]
rs9524217	0.82[EUR][1000 genomes]
rs9524218	0.82[EUR][1000 genomes]
rs9524222	0.82[EUR][1000 genomes]
rs9524223	0.82[EUR][1000 genomes]
rs9524224	0.82[EUR][1000 genomes]
rs9524225	0.82[EUR][1000 genomes]
rs9524231	0.82[EUR][1000 genomes]
rs9524236	0.82[EUR][1000 genomes]
rs9524243	0.84[EUR][1000 genomes]
rs9524247	0.85[EUR][1000 genomes]
rs9524249	0.82[EUR][1000 genomes]
rs9524252	0.91[EUR][1000 genomes]
rs9524253	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9524254	0.91[EUR][1000 genomes]
rs9524257	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9524262	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9524263	0.91[EUR][1000 genomes]
rs9524264	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9524265	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9524268	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9524272	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9524274	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9556324	0.81[EUR][1000 genomes]
rs9556325	0.81[EUR][1000 genomes]
rs9556326	0.81[EUR][1000 genomes]
rs9556328	0.82[EUR][1000 genomes]
rs9556334	0.89[EUR][1000 genomes]
rs9561444	0.81[EUR][1000 genomes]
rs9561445	0.81[EUR][1000 genomes]
rs9561447	0.82[EUR][1000 genomes]
rs9561448	0.82[EUR][1000 genomes]
rs9561449	0.82[EUR][1000 genomes]
rs9561458	0.89[EUR][1000 genomes]
rs9589836	0.82[EUR][1000 genomes]
rs9589837	0.82[EUR][1000 genomes]
rs9589841	0.86[EUR][1000 genomes]
rs9589842	0.82[EUR][1000 genomes]
rs991431	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs991596	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs991597	0.89[EUR][1000 genomes]
rs996920	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs996921	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 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	nsv430598	chr13:94490519-94546599	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv916640	chr13:94521959-95101443	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9516308	GPC6	cis	Artery Aorta	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:94528000-94533400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr13:94528200-94533800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr13:94531200-94534400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr13:94531400-94534400	Weak transcription	Fetal Stomach	stomach

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