Variant report

Variant	rs2926397
Chromosome Location	chr10:55675190-55675191
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 161 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:151)

rs_ID	r²[population]
rs10740557	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs10740558	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs10740559	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10763016	0.90[CEU][hapmap]
rs10763019	0.98[EUR][1000 genomes]
rs10763020	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs10763021	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs10763022	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs10763024	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs10763025	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs10763027	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs10763028	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10763038	0.87[CEU][hapmap];0.82[TSI][hapmap]
rs10825138	1.00[CEU][hapmap]
rs10825147	0.83[CEU][hapmap]
rs10825148	0.91[CEU][hapmap]
rs10825155	0.98[EUR][1000 genomes]
rs10825156	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs10825157	1.00[CEU][hapmap];1.00[GIH][hapmap];0.97[TSI][hapmap];0.98[EUR][1000 genomes]
rs10825159	0.98[EUR][1000 genomes]
rs10825161	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10825185	0.96[CEU][hapmap]
rs11003893	1.00[CEU][hapmap]
rs11003898	0.92[CEU][hapmap]
rs11003902	0.92[CEU][hapmap]
rs11003918	1.00[CEU][hapmap]
rs11003919	1.00[CEU][hapmap]
rs11003969	0.95[CEU][hapmap]
rs11812585	1.00[ASN][1000 genomes]
rs17704703	1.00[ASN][1000 genomes]
rs1900421	0.96[CEU][hapmap];0.90[EUR][1000 genomes]
rs1900422	0.88[EUR][1000 genomes]
rs1900423	1.00[CEU][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1900424	0.92[CEU][hapmap]
rs1900425	0.92[CEU][hapmap];0.91[TSI][hapmap]
rs1900426	0.92[CEU][hapmap]
rs1900427	0.92[CEU][hapmap];0.91[TSI][hapmap]
rs1900444	0.95[CEU][hapmap]
rs1900449	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1900450	1.00[CEU][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1900451	1.00[CEU][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1900453	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs1900458	0.96[CEU][hapmap];0.91[MEX][hapmap];0.94[TSI][hapmap];0.90[EUR][1000 genomes]
rs1900459	0.96[CEU][hapmap];0.90[EUR][1000 genomes]
rs1911420	0.87[CEU][hapmap]
rs1911427	0.87[CEU][hapmap];0.82[TSI][hapmap]
rs1911429	0.87[CEU][hapmap];0.82[TSI][hapmap]
rs1911430	0.87[CEU][hapmap]
rs2069216	0.84[EUR][1000 genomes]
rs2121525	0.96[CEU][hapmap];0.94[TSI][hapmap];0.90[EUR][1000 genomes]
rs2135718	0.86[CEU][hapmap]
rs2135723	1.00[CEU][hapmap]
rs2166620	0.90[EUR][1000 genomes]
rs2166621	0.90[EUR][1000 genomes]
rs2166628	0.88[EUR][1000 genomes]
rs2174716	0.92[CEU][hapmap]
rs2246768	0.92[EUR][1000 genomes]
rs2384327	0.88[EUR][1000 genomes]
rs2384328	1.00[CEU][hapmap]
rs2384332	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2384333	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2384334	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2384340	1.00[CEU][hapmap];0.86[GIH][hapmap];0.91[MEX][hapmap]
rs2384343	0.96[CEU][hapmap];0.94[TSI][hapmap];0.90[EUR][1000 genomes]
rs2446600	0.96[CEU][hapmap]
rs2446608	0.90[CEU][hapmap]
rs2446609	0.87[CEU][hapmap]
rs2456699	0.92[CEU][hapmap]
rs2456701	0.86[CEU][hapmap]
rs2593103	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.91[LWK][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2593105	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2593106	1.00[CEU][hapmap]
rs2593107	0.85[TSI][hapmap]
rs2593119	0.80[CEU][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2593120	1.00[CEU][hapmap];1.00[GIH][hapmap];0.97[TSI][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2593122	1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[MEX][hapmap];0.97[TSI][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2593123	1.00[CEU][hapmap]
rs2593124	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2593129	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs2593133	0.87[CEU][hapmap]
rs2593135	0.87[CEU][hapmap];0.82[TSI][hapmap]
rs2593136	0.87[CEU][hapmap]
rs2593138	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2593139	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2593140	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2610823	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs2610837	0.95[CEU][hapmap];0.93[GIH][hapmap];0.91[MEX][hapmap];0.94[TSI][hapmap]
rs2610857	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2610874	0.88[CEU][hapmap]
rs2610893	0.91[CEU][hapmap]
rs2610899	0.87[CEU][hapmap]
rs2610902	0.95[CEU][hapmap]
rs2610908	0.91[CEU][hapmap]
rs2610909	0.92[CEU][hapmap]
rs2610910	0.92[CEU][hapmap];1.00[ASN][1000 genomes]
rs2610912	1.00[CEU][hapmap]
rs2610919	1.00[CEU][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2660172	0.87[CEU][hapmap]
rs2660173	0.87[CEU][hapmap];0.82[TSI][hapmap]
rs2660178	0.96[CEU][hapmap]
rs2660183	0.87[CEU][hapmap];0.82[TSI][hapmap]
rs2660184	0.87[CEU][hapmap];0.82[TSI][hapmap]
rs2660186	0.83[CEU][hapmap]
rs2660190	0.86[CEU][hapmap]
rs2660197	0.92[CEU][hapmap]
rs2921912	1.00[CEU][hapmap]
rs2921924	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2921925	1.00[CEU][hapmap];0.90[GIH][hapmap];0.91[MEX][hapmap];0.91[TSI][hapmap]
rs2921926	1.00[CEU][hapmap]
rs2926391	1.00[CEU][hapmap]
rs2926396	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2926398	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2926399	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2926404	0.96[CEU][hapmap]
rs2926410	0.96[CEU][hapmap]
rs4287256	0.92[CEU][hapmap]
rs4364970	0.92[CEU][hapmap]
rs4376818	0.92[CEU][hapmap]
rs4427480	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4466737	0.92[CEU][hapmap]
rs4478892	0.92[CEU][hapmap];0.91[TSI][hapmap]
rs4478893	0.92[CEU][hapmap];0.91[TSI][hapmap]
rs4488105	0.91[CEU][hapmap]
rs4488106	0.91[CEU][hapmap]
rs4586053	0.92[CEU][hapmap]
rs4935485	0.92[CEU][hapmap]
rs4935487	0.88[CEU][hapmap]
rs5003374	0.92[CEU][hapmap]
rs61858296	1.00[ASN][1000 genomes]
rs6481043	1.00[CEU][hapmap]
rs6481045	0.96[CEU][hapmap];0.90[EUR][1000 genomes]
rs7069577	0.92[CEU][hapmap]
rs7070828	0.81[CEU][hapmap]
rs7071158	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7073930	0.92[CEU][hapmap]
rs7083009	0.84[CEU][hapmap]
rs7087311	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7089258	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7089762	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7091282	0.92[CEU][hapmap]
rs7095839	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7097365	0.92[CEU][hapmap];0.91[TSI][hapmap]
rs7476991	0.92[CEU][hapmap]
rs7893789	1.00[CEU][hapmap]
rs7904289	1.00[CEU][hapmap]
rs7905665	0.92[CEU][hapmap]
rs7905801	0.92[CEU][hapmap]
rs7910658	1.00[CEU][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7912992	0.90[EUR][1000 genomes]
rs7915856	0.90[EUR][1000 genomes]
rs7920872	0.92[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1842975	chr10:55378668-55736655	ZNF genes & repeats Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv949692	chr10:55502542-55893206	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv895429	chr10:55564355-55736655	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv1049442	chr10:55638740-55681002	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv895430	chr10:55645953-55736655	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv1052939	chr10:55654719-55769239	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv550948	chr10:55662089-55714355	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv467213	chr10:55662089-55725234	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv550949	chr10:55662089-55725234	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv550950	chr10:55662156-55714355	ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2926397	PCDH15	cis	parietal	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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