Variant report

Variant	rs9822266
Chromosome Location	chr3:81923706-81923707
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs1155277	1.00[CEU][hapmap];0.88[JPT][hapmap]
rs11711331	0.85[GIH][hapmap]
rs11925940	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12495343	0.91[EUR][1000 genomes]
rs12635671	0.90[EUR][1000 genomes]
rs1375086	0.96[CEU][hapmap];0.91[GIH][hapmap];0.88[JPT][hapmap];0.91[MEX][hapmap];0.89[TSI][hapmap]
rs1404297	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1829967	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1851917	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1971426	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1973800	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1973801	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1973803	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1973804	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1997002	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2030708	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2244294	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2252530	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2594547	1.00[CEU][hapmap];0.93[GIH][hapmap];0.88[JPT][hapmap];0.91[MEX][hapmap];0.89[TSI][hapmap]
rs2594549	1.00[CEU][hapmap];0.88[JPT][hapmap]
rs2594551	1.00[ASW][hapmap];1.00[CEU][hapmap];0.93[GIH][hapmap];0.88[JPT][hapmap];0.91[MEX][hapmap];0.92[MKK][hapmap];0.86[TSI][hapmap];1.00[YRI][hapmap]
rs2594553	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs2594558	0.89[EUR][1000 genomes]
rs2594562	1.00[ASW][hapmap];1.00[CEU][hapmap];0.93[GIH][hapmap];0.88[JPT][hapmap];0.91[MEX][hapmap];0.92[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2680245	1.00[CEU][hapmap];0.93[GIH][hapmap];0.88[JPT][hapmap];0.86[MEX][hapmap];0.89[TSI][hapmap];0.88[EUR][1000 genomes]
rs2680246	0.88[EUR][1000 genomes]
rs2680257	1.00[CEU][hapmap];0.88[JPT][hapmap]
rs2680260	0.82[JPT][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2680274	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2680277	0.95[CEU][hapmap];0.90[EUR][1000 genomes]
rs2680280	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2691077	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2691078	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2691079	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2691080	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2691083	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2691085	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2691089	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2691093	0.96[CEU][hapmap];0.95[GIH][hapmap];0.89[TSI][hapmap];0.90[EUR][1000 genomes]
rs3772882	0.89[GIH][hapmap]
rs3772883	0.89[GIH][hapmap]
rs3772899	0.96[CEU][hapmap];0.86[GIH][hapmap]
rs3821548	0.85[GIH][hapmap]
rs3849570	0.85[GIH][hapmap]
rs3860595	0.84[GIH][hapmap]
rs4273393	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4411908	0.89[GIH][hapmap]
rs4479621	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6774438	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6803932	1.00[CEU][hapmap];0.93[GIH][hapmap];0.88[JPT][hapmap];0.91[MEX][hapmap];0.89[TSI][hapmap];0.90[EUR][1000 genomes]
rs7611902	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7620240	0.82[GIH][hapmap]
rs7653333	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs950904	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs957670	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9810377	0.81[EUR][1000 genomes]
rs9860204	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999992	chr3:81693662-82015969	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv536605	chr3:81693662-82015969	Flanking Active TSS Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv441830	chr3:81909338-81923746	Weak transcription Enhancers Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9822266	GRIN1	trans	cerebellum	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:81914000-81927000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:81922000-81926000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr3:81922600-81926000	Weak transcription	NHDF-Ad	bronchial
4	chr3:81922800-81925800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr3:81923600-81924000	Enhancers	Hela-S3	cervix

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