Variant report

Variant	rs13062883
Chromosome Location	chr3:155933610-155933611
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 113 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:111)

rs_ID	r²[population]
rs13058807	1.00[ASN][1000 genomes]
rs13059614	1.00[ASN][1000 genomes]
rs13065118	1.00[ASN][1000 genomes]
rs13065597	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13069492	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13069920	1.00[CEU][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];0.95[TSI][hapmap];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13070168	0.93[CEU][hapmap]
rs13070615	0.93[CEU][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13070956	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13074749	1.00[ASN][1000 genomes]
rs13076854	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13077031	0.93[CEU][hapmap];0.91[GIH][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13077891	1.00[ASN][1000 genomes]
rs13077893	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13079160	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13081735	0.87[CEU][hapmap]
rs13084227	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13084675	0.90[EUR][1000 genomes]
rs13085088	0.93[CEU][hapmap];0.88[GIH][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13085540	0.81[CEU][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13086158	0.81[CEU][hapmap];0.88[MEX][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13086539	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13086617	1.00[CEU][hapmap];0.95[GIH][hapmap];0.90[TSI][hapmap];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13086888	0.81[CEU][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13092781	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13094737	0.81[CEU][hapmap];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13098116	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13099875	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1499053	1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16825721	1.00[ASN][1000 genomes]
rs16825722	1.00[ASN][1000 genomes]
rs2013676	1.00[ASN][1000 genomes]
rs2167144	0.91[CEU][hapmap]
rs28454940	1.00[ASN][1000 genomes]
rs28653682	1.00[ASN][1000 genomes]
rs28670754	1.00[ASN][1000 genomes]
rs34176040	1.00[ASN][1000 genomes]
rs34431563	1.00[ASN][1000 genomes]
rs34447473	1.00[ASN][1000 genomes]
rs34582489	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34611996	1.00[ASN][1000 genomes]
rs34636155	1.00[ASN][1000 genomes]
rs34721485	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34769075	1.00[ASN][1000 genomes]
rs34786673	1.00[ASN][1000 genomes]
rs34859273	1.00[ASN][1000 genomes]
rs34965136	1.00[ASN][1000 genomes]
rs34971897	1.00[ASN][1000 genomes]
rs35081098	1.00[ASN][1000 genomes]
rs35120330	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35186736	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35306833	1.00[ASN][1000 genomes]
rs35336094	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35385116	1.00[ASN][1000 genomes]
rs35388604	1.00[ASN][1000 genomes]
rs35489883	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35692708	1.00[ASN][1000 genomes]
rs35935941	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35938711	1.00[ASN][1000 genomes]
rs35972274	1.00[ASN][1000 genomes]
rs36023787	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs36101183	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36106222	1.00[ASN][1000 genomes]
rs36124391	1.00[ASN][1000 genomes]
rs4378930	1.00[ASN][1000 genomes]
rs55868315	1.00[ASN][1000 genomes]
rs57525215	1.00[ASN][1000 genomes]
rs58487502	1.00[ASN][1000 genomes]
rs59260261	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs59289038	1.00[ASN][1000 genomes]
rs6441048	1.00[CEU][hapmap];0.88[YRI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66496214	1.00[ASN][1000 genomes]
rs66718940	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67049008	1.00[ASN][1000 genomes]
rs67139403	1.00[ASN][1000 genomes]
rs67148190	1.00[ASN][1000 genomes]
rs67258913	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs67341546	1.00[ASN][1000 genomes]
rs67420553	1.00[ASN][1000 genomes]
rs67482406	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6767282	1.00[ASN][1000 genomes]
rs6770125	1.00[CEU][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6775190	1.00[ASN][1000 genomes]
rs67780510	1.00[ASN][1000 genomes]
rs6781558	1.00[ASN][1000 genomes]
rs67899274	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67955446	1.00[ASN][1000 genomes]
rs68058925	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs68176279	1.00[ASN][1000 genomes]
rs68188495	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71310462	1.00[ASN][1000 genomes]
rs71310463	1.00[ASN][1000 genomes]
rs71310465	1.00[ASN][1000 genomes]
rs71623492	1.00[ASN][1000 genomes]
rs73161026	1.00[ASN][1000 genomes]
rs73162706	1.00[ASN][1000 genomes]
rs73873481	1.00[ASN][1000 genomes]
rs7615469	1.00[ASN][1000 genomes]
rs7617514	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7627181	1.00[ASN][1000 genomes]
rs7627649	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7627831	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7639203	1.00[ASN][1000 genomes]
rs7641186	1.00[ASN][1000 genomes]
rs7644218	1.00[ASN][1000 genomes]
rs7649451	1.00[ASN][1000 genomes]
rs9683003	1.00[ASN][1000 genomes]
rs9813738	1.00[ASN][1000 genomes]
rs9837458	1.00[ASN][1000 genomes]
rs9850516	1.00[ASN][1000 genomes]
rs9874263	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv592085	chr3:155827634-156012679	Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1014755	chr3:155889430-156411894	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs13062883	SLC33A1	cis	cerebellum	SCAN
rs13062883	KCNAB1	cis	cerebellum	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155926800-155935600	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr3:155927000-155935400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr3:155928000-155934400	Weak transcription	Pancreas	Pancrea
4	chr3:155929800-155934000	Weak transcription	Fetal Heart	heart
5	chr3:155930000-155935200	Weak transcription	Osteobl	bone
6	chr3:155930000-155935400	Weak transcription	HMEC	breast
7	chr3:155930800-155935400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr3:155930800-155935400	Weak transcription	NHEK	skin
9	chr3:155930800-155935600	Weak transcription	Aorta	Aorta
10	chr3:155931400-155935400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr3:155933400-155936400	Enhancers	HSMMtube	muscle

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