Variant report

Variant	rs9564358
Chromosome Location	chr13:67470162-67470163
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs11617188	0.85[GIH][hapmap]
rs11841902	0.95[EUR][1000 genomes]
rs12427700	0.92[CEU][hapmap];0.87[GIH][hapmap];0.81[EUR][1000 genomes]
rs12428689	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs12429002	0.96[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12430583	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12875661	0.87[CEU][hapmap]
rs12875687	0.87[CEU][hapmap]
rs12875741	0.92[CEU][hapmap];0.92[GIH][hapmap];0.90[TSI][hapmap];0.95[EUR][1000 genomes]
rs1442006	0.92[CEU][hapmap];0.85[CHD][hapmap];0.90[GIH][hapmap];0.95[TSI][hapmap];0.81[EUR][1000 genomes]
rs1530301	0.81[CEU][hapmap];0.85[GIH][hapmap];0.90[MEX][hapmap];0.90[TSI][hapmap]
rs1998607	0.80[CEU][hapmap]
rs2010695	0.81[EUR][1000 genomes]
rs2031350	0.85[GIH][hapmap]
rs2165600	0.85[GIH][hapmap]
rs28459050	0.83[EUR][1000 genomes]
rs34304003	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4630424	0.84[GIH][hapmap]
rs4884707	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7324151	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs746273	0.81[CEU][hapmap]
rs9317615	0.85[GIH][hapmap]
rs9317618	0.81[CEU][hapmap]
rs9317619	0.87[CEU][hapmap]
rs9540920	0.82[GIH][hapmap]
rs9540936	0.81[EUR][1000 genomes]
rs9564355	0.82[MEX][hapmap]
rs9564356	0.90[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs9564360	0.92[CEU][hapmap];0.95[GIH][hapmap];0.80[TSI][hapmap];0.93[EUR][1000 genomes]
rs9571678	0.88[CEU][hapmap]
rs9571679	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs9571680	0.96[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.92[GIH][hapmap];0.95[JPT][hapmap];0.95[TSI][hapmap]
rs9571681	0.81[MEX][hapmap]
rs9571685	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9571686	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9571687	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9571688	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9571691	0.94[EUR][1000 genomes]
rs9592490	0.88[CEU][hapmap]
rs9592491	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs9599153	0.85[GIH][hapmap]
rs9972065	0.87[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1041133	chr13:66723731-67530595	Enhancers Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv530605	chr13:67126136-67697306	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1035741	chr13:67212973-68077950	Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv541817	chr13:67212973-68077950	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv523360	chr13:67322714-67520344	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1051576	chr13:67322747-67520255	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv562136	chr13:67355618-67485147	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv900406	chr13:67434161-67532205	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv900407	chr13:67434161-67603745	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv562138	chr13:67455787-67511430	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
11	nsv832640	chr13:67460304-67635966	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:67469600-67470200	Enhancers	Brain Angular Gyrus	brain
2	chr13:67469600-67470200	Enhancers	Brain Inferior Temporal Lobe	brain
3	chr13:67469600-67470200	Enhancers	HSMMtube	muscle
4	chr13:67469600-67470400	Enhancers	Brain Cingulate Gyrus	brain
5	chr13:67469600-67470400	Enhancers	Brain Hippocampus Middle	brain
6	chr13:67469600-67470400	Enhancers	HSMM	muscle
7	chr13:67469800-67470200	Enhancers	Brain Anterior Caudate	brain
8	chr13:67469800-67470200	Enhancers	Brain Substantia Nigra	brain
9	chr13:67469800-67471000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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