Variant report

Variant	rs278909
Chromosome Location	chr12:41424072-41424073
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs12296475	0.85[EUR][1000 genomes]
rs12314872	0.89[ASN][1000 genomes]
rs12321608	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12809837	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12811839	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12824182	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1442190	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs157126	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs278900	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs278901	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs278902	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs278903	0.86[AMR][1000 genomes]
rs278906	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs280355	0.90[EUR][1000 genomes]
rs280356	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs280357	1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs280359	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs280360	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs280361	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs280362	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59142970	0.89[ASN][1000 genomes]
rs692211	0.90[EUR][1000 genomes]
rs693762	0.90[EUR][1000 genomes]
rs7305416	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7980318	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9652040	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv497867	chr12:41286305-41728650	Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv832382	chr12:41359550-41489681	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv427910	chr12:41374913-41650593	Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv428587	chr12:41375635-41546845	Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1051524	chr12:41409977-41643387	Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:41405200-41429800	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr12:41407000-41425200	Weak transcription	Brain Angular Gyrus	brain
3	chr12:41408200-41426400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr12:41408200-41449800	Weak transcription	Brain Anterior Caudate	brain
5	chr12:41408800-41428000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr12:41409000-41435000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr12:41410000-41424800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr12:41417000-41427400	Weak transcription	Fetal Lung	lung
9	chr12:41418000-41424600	Weak transcription	Brain Cingulate Gyrus	brain
10	chr12:41421800-41426200	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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