Variant report

Variant	rs17234460
Chromosome Location	chr13:94047270-94047271
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs1323972	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1323989	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1359198	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.80[TSI][hapmap];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1408211	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1445266	1.00[CEU][hapmap];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1445271	0.80[ASN][1000 genomes]
rs1445272	0.80[ASN][1000 genomes]
rs1445273	0.80[ASN][1000 genomes]
rs1445275	0.83[EUR][1000 genomes]
rs17300206	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1900050	0.80[ASN][1000 genomes]
rs1924383	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1947077	0.86[CHB][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs1980727	0.91[CEU][hapmap];0.85[CHB][hapmap];0.85[GIH][hapmap];0.87[MEX][hapmap];0.88[EUR][1000 genomes]
rs2025947	1.00[CEU][hapmap]
rs2038727	1.00[CEU][hapmap];0.95[CHB][hapmap];0.84[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2590549	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs2590552	0.80[ASN][1000 genomes]
rs2762082	0.91[CEU][hapmap];0.82[GIH][hapmap];0.91[JPT][hapmap];0.87[MEX][hapmap];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2762092	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2762120	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2813627	0.86[CHB][hapmap];0.81[CHD][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs2813636	0.80[ASN][1000 genomes]
rs3814277	1.00[CEU][hapmap]
rs4771875	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4773744	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4773745	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4773746	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4773747	1.00[CEU][hapmap];0.95[CHB][hapmap];0.81[CHD][hapmap];0.85[GIH][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72640517	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7329539	1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7338402	0.91[CEU][hapmap];0.82[GIH][hapmap];0.91[JPT][hapmap];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7994277	1.00[CEU][hapmap]
rs7996825	0.87[ASW][hapmap]
rs7997302	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8002366	1.00[CEU][hapmap]
rs876808	1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.95[TSI][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs895193	0.86[CHB][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs895194	0.80[ASN][1000 genomes]
rs9301877	1.00[CEU][hapmap];0.96[MEX][hapmap];0.86[TSI][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9301881	0.91[JPT][hapmap]
rs9516225	1.00[CEU][hapmap]
rs9516228	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9524029	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9524038	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9524039	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9524045	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9524047	0.84[ASN][1000 genomes]
rs9524051	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9524053	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9524058	0.88[EUR][1000 genomes]
rs9524061	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9524070	0.91[CEU][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes]
rs9524075	0.86[CHB][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs9556289	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9556291	0.83[EUR][1000 genomes]
rs9561315	1.00[CEU][hapmap]
rs9561322	1.00[CEU][hapmap]
rs9561326	1.00[CEU][hapmap]
rs9561329	1.00[CEU][hapmap]
rs9561334	0.86[CEU][hapmap]
rs9561336	1.00[CEU][hapmap];0.96[MEX][hapmap];0.90[TSI][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9561340	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9561346	0.89[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9561347	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs973302	0.91[CEU][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes]
rs974542	0.86[CHB][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs974543	0.80[ASN][1000 genomes]
rs974544	0.80[ASN][1000 genomes]
rs996460	0.86[CHB][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs996461	0.86[CHB][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs996463	0.86[CHB][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869070	chr13:93347616-94286933	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1053035	chr13:93842576-94229732	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv541880	chr13:93842576-94229732	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv530636	chr13:93997311-94281707	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv916039	chr13:94035909-94191105	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv977270	chr13:94047238-94047882	Weak transcription Strong transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:94046600-94052400	Weak transcription	Fetal Brain Male	brain
2	chr13:94047000-94047800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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