Variant report

Variant	rs1952421
Chromosome Location	chr13:29691229-29691230
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 108 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:106)

rs_ID	r²[population]
rs1109007	0.94[CHB][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs1467578	0.94[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1467579	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1536717	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1536718	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1536719	0.94[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.86[GIH][hapmap];0.86[JPT][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1536720	0.94[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.86[GIH][hapmap];0.86[JPT][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1575301	0.94[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17072796	1.00[CEU][hapmap];0.86[JPT][hapmap];0.87[EUR][1000 genomes]
rs1887749	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1887751	0.94[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.86[GIH][hapmap];0.86[JPT][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1887752	0.94[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.86[GIH][hapmap];0.86[JPT][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1927838	0.94[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs1927840	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1927842	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1927843	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1927844	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2025972	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2094557	0.83[EUR][1000 genomes]
rs2149322	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2182990	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2475529	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2475530	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2475531	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2475532	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2475533	0.94[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.86[GIH][hapmap];0.86[JPT][hapmap];0.86[TSI][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2475534	0.94[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.86[GIH][hapmap];0.86[JPT][hapmap];0.86[TSI][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2475536	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2475537	0.94[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2479789	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2479790	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2479791	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2479792	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2479793	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2479794	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2479795	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2479796	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2479798	0.94[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2479801	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2479803	0.94[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.86[GIH][hapmap];0.86[JPT][hapmap];0.86[TSI][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2987345	0.94[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.86[GIH][hapmap];0.86[JPT][hapmap];0.86[TSI][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3751402	0.94[CEU][hapmap];0.83[EUR][1000 genomes]
rs3829381	0.83[EUR][1000 genomes]
rs4238115	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4365146	0.94[CHB][hapmap];0.82[CHD][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs4432107	0.94[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs4769002	0.87[ASN][1000 genomes]
rs4769681	0.87[ASN][1000 genomes]
rs6490350	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6490351	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6490352	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6490355	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs656803	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs685778	1.00[CHB][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7324366	0.94[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7324548	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7331539	0.87[ASN][1000 genomes]
rs7331544	0.80[GIH][hapmap]
rs7331934	0.94[CHB][hapmap];0.82[CHD][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs7332351	0.94[CHB][hapmap];0.82[CHD][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs7334488	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7336281	0.94[CEU][hapmap];0.83[EUR][1000 genomes]
rs7981238	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7981689	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7982710	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7985792	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7986301	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7987444	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7994251	0.94[CEU][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];0.86[GIH][hapmap];0.95[JPT][hapmap];0.86[TSI][hapmap]
rs7994936	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7995588	1.00[CEU][hapmap];0.95[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7999357	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7999521	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9314932	0.94[CEU][hapmap];0.82[GIH][hapmap];0.82[MEX][hapmap];0.83[EUR][1000 genomes]
rs9314933	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9314934	0.89[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9506098	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9506099	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9506100	0.94[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9506101	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9506102	0.94[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.86[GIH][hapmap];0.86[JPT][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9506103	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9506105	0.94[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9506106	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9506107	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9506108	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9506110	0.94[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9508268	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9508270	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9508271	0.94[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.86[GIH][hapmap];0.86[JPT][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9508272	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9508278	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9508279	0.89[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9508281	0.82[ASN][1000 genomes]
rs9508284	0.94[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs9508285	0.87[ASN][1000 genomes]
rs9508288	0.87[ASN][1000 genomes]
rs9551602	0.94[CEU][hapmap];0.82[GIH][hapmap];0.82[MEX][hapmap];0.83[EUR][1000 genomes]
rs9578073	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9579284	0.88[CHB][hapmap]
rs9579285	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9579286	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9579287	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9579288	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9579290	0.94[CHB][hapmap]
rs9634353	1.00[CEU][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];0.88[EUR][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	nsv533835	chr13:29141132-29962069	Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	esv3406145	chr13:29616606-29917459	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1952421	C13orf26	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:29677200-29697800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr13:29684800-29692200	Weak transcription	Stomach Smooth Muscle	stomach
3	chr13:29686800-29692400	Weak transcription	Aorta	Aorta
4	chr13:29691200-29693000	Enhancers	Fetal Heart	heart

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