Variant report

Variant	rs1540609
Chromosome Location	chr13:96752314-96752315
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 90 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs1015068	1.00[CEU][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.83[EUR][1000 genomes]
rs11070157	1.00[CEU][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.83[EUR][1000 genomes]
rs1114308	0.92[CEU][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.83[EUR][1000 genomes]
rs11619333	0.92[CEU][hapmap]
rs11619490	0.86[EUR][1000 genomes]
rs11841021	0.89[CEU][hapmap];0.95[MEX][hapmap];0.91[TSI][hapmap]
rs11842755	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11843772	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1411557	0.96[CEU][hapmap];0.95[MEX][hapmap];0.91[TSI][hapmap]
rs17189951	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs1813179	0.82[EUR][1000 genomes]
rs1854173	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1872161	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs2026818	0.82[MEX][hapmap];0.90[TSI][hapmap]
rs2026819	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs2062276	1.00[CEU][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.83[EUR][1000 genomes]
rs2129005	0.86[EUR][1000 genomes]
rs2170812	0.86[EUR][1000 genomes]
rs2389532	0.81[CEU][hapmap]
rs2389571	0.86[EUR][1000 genomes]
rs28649586	0.85[EUR][1000 genomes]
rs34816227	0.84[EUR][1000 genomes]
rs35836619	0.89[CEU][hapmap];0.82[MEX][hapmap];0.86[TSI][hapmap]
rs35898412	0.83[EUR][1000 genomes]
rs3759441	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3759442	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3782989	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs3825424	1.00[CEU][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.83[EUR][1000 genomes]
rs4547218	1.00[CEU][hapmap]
rs4771923	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs4773933	0.86[EUR][1000 genomes]
rs4773934	0.86[EUR][1000 genomes]
rs4773935	0.83[EUR][1000 genomes]
rs61973963	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6492827	0.96[CEU][hapmap];0.82[MEX][hapmap];0.91[TSI][hapmap]
rs6492828	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6492829	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7317285	0.83[EUR][1000 genomes]
rs7320351	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7324957	0.89[CEU][hapmap]
rs7325915	0.96[CEU][hapmap]
rs7327532	0.85[CEU][hapmap]
rs7328164	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7328703	0.89[CEU][hapmap]
rs7331461	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs7334100	0.83[EUR][1000 genomes]
rs7334508	0.96[CEU][hapmap];0.87[MEX][hapmap]
rs7335872	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7336088	1.00[CEU][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7336483	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7338224	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs764714	0.86[EUR][1000 genomes]
rs7983589	0.96[CEU][hapmap]
rs7986005	0.96[CEU][hapmap];0.83[TSI][hapmap]
rs7987510	0.87[EUR][1000 genomes]
rs7990833	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7991250	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7992875	0.86[EUR][1000 genomes]
rs7995922	0.88[EUR][1000 genomes]
rs7998353	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs9556512	0.96[CEU][hapmap]
rs9556513	0.89[CEU][hapmap]
rs9556516	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9556517	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9556518	0.83[EUR][1000 genomes]
rs9556520	0.82[EUR][1000 genomes]
rs9556521	0.96[CEU][hapmap]
rs9556523	0.86[EUR][1000 genomes]
rs9561995	0.92[CEU][hapmap]
rs9561998	0.96[CEU][hapmap]
rs9562012	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs9562014	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9562015	0.84[EUR][1000 genomes]
rs9562016	0.84[EUR][1000 genomes]
rs9562017	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9562018	0.85[EUR][1000 genomes]
rs9562019	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9562025	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9562027	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9562032	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9634487	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9670470	0.96[CEU][hapmap];0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1050430	chr13:96508530-97020734	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv541883	chr13:96508530-97020734	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv1041165	chr13:96522021-96966520	Enhancers Bivalent/Poised TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv1051574	chr13:96550653-96779248	Strong transcription Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv1040320	chr13:96573646-96790859	Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv869471	chr13:96622327-97223956	Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
7	nsv530390	chr13:96681439-97193029	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
8	nsv900936	chr13:96697209-97032483	Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1540609	CLDN10	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:96744400-96752800	Weak transcription	Aorta	Aorta

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