Variant report

Variant	rs12496241
Chromosome Location	chr3:151234498-151234499
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 98 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:94)

rs_ID	r²[population]
rs10935854	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11920861	0.91[EUR][1000 genomes]
rs12485986	0.93[CEU][hapmap];0.82[CHB][hapmap];0.87[YRI][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4234323	0.91[EUR][1000 genomes]
rs4234324	0.89[EUR][1000 genomes]
rs4234326	0.86[EUR][1000 genomes]
rs4234327	0.86[EUR][1000 genomes]
rs4234328	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4234329	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4256103	0.91[EUR][1000 genomes]
rs4256104	0.87[EUR][1000 genomes]
rs4257516	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4266168	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4273348	0.87[EUR][1000 genomes]
rs4296568	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4339091	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4383490	0.91[EUR][1000 genomes]
rs4387942	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4402912	0.86[EUR][1000 genomes]
rs4423742	0.91[EUR][1000 genomes]
rs4452303	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4458346	0.91[EUR][1000 genomes]
rs4467429	0.91[EUR][1000 genomes]
rs4475011	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4518099	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4532110	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4541381	0.92[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.86[YRI][hapmap]
rs4550806	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4550807	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4583622	0.86[EUR][1000 genomes]
rs4596123	0.92[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.86[YRI][hapmap]
rs4605516	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4618202	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4679835	0.93[CEU][hapmap];0.82[CHB][hapmap];0.84[EUR][1000 genomes]
rs4679847	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4679848	0.86[EUR][1000 genomes]
rs4680474	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4680484	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4680487	0.84[EUR][1000 genomes]
rs6440749	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6440750	0.90[EUR][1000 genomes]
rs6440757	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6440765	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6767984	0.90[EUR][1000 genomes]
rs6768085	0.90[EUR][1000 genomes]
rs6768853	0.91[EUR][1000 genomes]
rs6772583	0.91[EUR][1000 genomes]
rs6773513	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6774270	0.91[EUR][1000 genomes]
rs6775810	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6778090	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6779571	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6784030	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6785746	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6786811	0.91[EUR][1000 genomes]
rs6786901	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6789689	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6792286	0.91[EUR][1000 genomes]
rs6800745	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6810156	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7612205	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7615314	0.92[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.86[YRI][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7615828	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7617483	0.87[EUR][1000 genomes]
rs7622835	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7622862	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7623843	0.86[EUR][1000 genomes]
rs7624653	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7629176	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7631871	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7637276	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7638109	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7643197	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9289848	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9811627	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9812692	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9815081	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9816549	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9821160	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9821181	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9825135	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9825219	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9829893	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9830216	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9840578	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9841068	0.86[EUR][1000 genomes]
rs9841913	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9855531	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9867936	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9876367	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9876462	0.91[EUR][1000 genomes]
rs9880648	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9881269	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9882955	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1000355	chr3:151108859-151243835	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv995048	chr3:151114074-151560019	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
3	nsv877649	chr3:151147968-151236562	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv877650	chr3:151174010-151314449	Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:151219000-151252400	Weak transcription	Ovary	ovary
2	chr3:151233800-151234600	Weak transcription	Pancreatic Islets	Pancreatic Islet

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