Variant report

Variant	rs1917098
Chromosome Location	chr3:78304225-78304226
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs12631515	0.83[ASN][1000 genomes]
rs12631676	0.87[ASN][1000 genomes]
rs12632339	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12635998	0.81[ASN][1000 genomes]
rs12636011	0.81[ASN][1000 genomes]
rs12636583	0.81[ASN][1000 genomes]
rs12638712	0.88[ASN][1000 genomes]
rs12639191	0.86[ASN][1000 genomes]
rs12639209	0.86[ASN][1000 genomes]
rs13096355	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1398328	0.87[ASN][1000 genomes]
rs1398329	0.87[ASN][1000 genomes]
rs1398330	0.87[ASN][1000 genomes]
rs1398331	0.87[ASN][1000 genomes]
rs17777319	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17777549	0.81[ASN][1000 genomes]
rs17833836	0.93[ASN][1000 genomes]
rs17834090	0.83[ASN][1000 genomes]
rs1858425	0.81[ASN][1000 genomes]
rs1917097	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1917099	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1917100	1.00[ASN][1000 genomes]
rs1917102	0.98[ASN][1000 genomes]
rs2140645	0.86[ASN][1000 genomes]
rs2872375	1.00[ASN][1000 genomes]
rs35884433	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36044834	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58383444	0.83[ASN][1000 genomes]
rs58971449	0.83[ASN][1000 genomes]
rs62254596	0.84[ASN][1000 genomes]
rs62254597	0.87[ASN][1000 genomes]
rs62254599	0.87[ASN][1000 genomes]
rs62254600	0.87[ASN][1000 genomes]
rs62254601	0.86[ASN][1000 genomes]
rs62254603	0.86[ASN][1000 genomes]
rs62254606	0.86[ASN][1000 genomes]
rs62254607	0.83[ASN][1000 genomes]
rs62254610	0.83[ASN][1000 genomes]
rs62254611	0.83[ASN][1000 genomes]
rs62254612	0.81[ASN][1000 genomes]
rs62254613	0.81[ASN][1000 genomes]
rs62254614	0.81[ASN][1000 genomes]
rs62256248	0.94[ASN][1000 genomes]
rs62256250	0.93[ASN][1000 genomes]
rs62256251	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62256252	0.93[ASN][1000 genomes]
rs62256253	0.93[ASN][1000 genomes]
rs62256254	0.88[ASN][1000 genomes]
rs62256256	0.90[ASN][1000 genomes]
rs62256259	0.87[ASN][1000 genomes]
rs67330234	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6766104	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6776916	1.00[ASN][1000 genomes]
rs6777743	0.87[ASN][1000 genomes]
rs6778976	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6782991	0.86[ASN][1000 genomes]
rs6783421	0.86[ASN][1000 genomes]
rs925504	0.87[ASN][1000 genomes]
rs9844417	1.00[ASN][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	nsv877017	chr3:77881397-78670654	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1008290	chr3:77895292-78308583	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv536595	chr3:77895292-78308583	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv529995	chr3:78188643-78739698	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	nsv460726	chr3:78295664-78455767	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv590733	chr3:78295664-78455767	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	esv3399358	chr3:78302462-78304510	Enhancers Weak transcription	n/a	n/a	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1917098	GBE1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:78300400-78307000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:78303000-78304800	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr3:78303800-78304600	Weak transcription	NHLF	lung
4	chr3:78304200-78304800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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