Variant report

Variant	rs2925353
Chromosome Location	chr11:93124979-93124980
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 80 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs1004417	0.82[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.95[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.84[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10831032	0.90[CHB][hapmap]
rs10831033	0.87[CHB][hapmap]
rs10831046	0.82[CHB][hapmap]
rs11020298	0.87[CHB][hapmap]
rs11020301	0.87[CHB][hapmap]
rs11020303	0.87[CHB][hapmap]
rs11020304	0.87[CHB][hapmap]
rs11020306	0.87[CHB][hapmap]
rs11020311	0.87[CHB][hapmap]
rs11020313	0.87[CHB][hapmap]
rs11020314	0.87[CHB][hapmap]
rs11020315	0.82[CHB][hapmap]
rs11020316	0.80[CHB][hapmap]
rs11020354	0.86[CHB][hapmap]
rs11020356	0.82[CHB][hapmap]
rs11020357	0.82[CHB][hapmap]
rs12271165	0.87[CHB][hapmap]
rs12273033	0.82[CHB][hapmap]
rs12276463	0.87[CHB][hapmap]
rs12280126	0.88[CHB][hapmap]
rs12281366	0.86[CHB][hapmap]
rs12284477	0.85[CHB][hapmap]
rs12285123	0.86[CHB][hapmap]
rs12285128	0.87[CHB][hapmap]
rs12286814	0.87[CHB][hapmap]
rs12287849	0.87[CHB][hapmap]
rs12288277	0.87[CHB][hapmap]
rs12289685	0.87[CHB][hapmap]
rs12289847	0.82[CHB][hapmap]
rs12292127	0.81[CHB][hapmap]
rs12292451	0.87[CHB][hapmap]
rs12292876	0.87[CHB][hapmap]
rs12293300	0.86[CHB][hapmap]
rs12293344	0.87[CHB][hapmap]
rs12295955	0.81[CHB][hapmap]
rs1456236	0.87[CHB][hapmap]
rs1456239	0.84[CEU][hapmap];0.88[EUR][1000 genomes]
rs1456242	0.85[CEU][hapmap];1.00[GIH][hapmap];0.80[TSI][hapmap]
rs1456244	0.86[CHD][hapmap]
rs1598546	0.89[CEU][hapmap];0.91[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1598547	0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1869913	0.92[CEU][hapmap];0.90[YRI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1960665	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1975819	0.90[EUR][1000 genomes]
rs2124559	0.85[CEU][hapmap];0.98[GIH][hapmap];0.83[MEX][hapmap];0.82[TSI][hapmap];0.89[EUR][1000 genomes]
rs2259469	1.00[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.84[MKK][hapmap];0.98[TSI][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2259630	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2260769	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs2605575	0.96[CEU][hapmap];0.95[YRI][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2605576	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2605577	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2605578	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2605579	1.00[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2658771	0.87[ASW][hapmap];0.96[CEU][hapmap];0.98[GIH][hapmap];0.92[LWK][hapmap];0.96[MEX][hapmap];0.97[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2658774	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2925359	0.93[EUR][1000 genomes]
rs2925363	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3019203	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3019204	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3019218	0.86[EUR][1000 genomes]
rs3019219	0.88[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.90[EUR][1000 genomes]
rs3019220	0.90[EUR][1000 genomes]
rs3019227	0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3019229	0.85[CEU][hapmap];1.00[GIH][hapmap];0.83[MEX][hapmap];0.82[TSI][hapmap];0.89[EUR][1000 genomes]
rs3019230	0.89[EUR][1000 genomes]
rs3020055	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3020070	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3020071	0.87[ASW][hapmap];0.96[CEU][hapmap];1.00[GIH][hapmap];0.86[LWK][hapmap];0.96[MEX][hapmap];0.94[MKK][hapmap];0.93[TSI][hapmap];0.91[YRI][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3020072	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3020075	0.96[CEU][hapmap];1.00[GIH][hapmap];0.96[MEX][hapmap];0.85[MKK][hapmap];0.93[TSI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3020080	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7949734	0.87[CHB][hapmap]
rs7949990	0.87[CHB][hapmap]
rs975916	0.96[CEU][hapmap]
rs977255	0.82[CHB][hapmap]

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	nsv1039134	chr11:92790000-93219942	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv468793	chr11:93068163-93129893	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv898181	chr11:93072843-93662459	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
4	nsv1035530	chr11:93114111-93148948	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2925353	CCDC67	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:93111200-93128200	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr11:93116800-93126000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr11:93121000-93130200	Weak transcription	K562	blood
4	chr11:93123200-93127800	Weak transcription	Fetal Heart	heart

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