Variant report

Variant	rs278900
Chromosome Location	chr12:41408811-41408812
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs1083206	0.87[ASN][1000 genomes]
rs11178966	0.87[ASN][1000 genomes]
rs11179174	0.87[ASN][1000 genomes]
rs12296475	0.87[ASN][1000 genomes]
rs12307865	0.87[ASN][1000 genomes]
rs12314872	1.00[ASN][1000 genomes]
rs12321608	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12809837	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12811839	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12824182	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13328933	0.87[ASN][1000 genomes]
rs1442183	0.87[ASN][1000 genomes]
rs1442190	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs157126	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1866996	0.87[ASN][1000 genomes]
rs278901	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs278902	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs278903	0.87[ASN][1000 genomes]
rs278906	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs278909	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs278914	0.87[ASN][1000 genomes]
rs280355	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs280356	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs280357	0.93[AMR][1000 genomes]
rs280359	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs280360	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs280361	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs280362	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs397967	0.87[ASN][1000 genomes]
rs59142970	1.00[ASN][1000 genomes]
rs59599863	0.87[ASN][1000 genomes]
rs61443681	0.87[ASN][1000 genomes]
rs67249613	0.87[ASN][1000 genomes]
rs692211	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs693762	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7134389	0.87[ASN][1000 genomes]
rs7139018	0.87[ASN][1000 genomes]
rs7301266	0.87[ASN][1000 genomes]
rs7305416	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7312528	0.87[ASN][1000 genomes]
rs73275677	0.87[ASN][1000 genomes]
rs73275694	0.87[ASN][1000 genomes]
rs73277750	0.87[ASN][1000 genomes]
rs7980318	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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

No data

Chromatin state (count:18 , 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	chr12:41405400-41417600	Weak transcription	Brain Cingulate Gyrus	brain
3	chr12:41405600-41423000	Weak transcription	Ovary	ovary
4	chr12:41406800-41409000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr12:41407000-41425200	Weak transcription	Brain Angular Gyrus	brain
6	chr12:41407400-41409000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr12:41407400-41409000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr12:41407400-41409000	Enhancers	NHEK	skin
9	chr12:41407400-41409200	Enhancers	Muscle Satellite Cultured Cells	--
10	chr12:41407400-41409200	Enhancers	NH-A	brain
11	chr12:41408000-41413000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr12:41408200-41409400	Enhancers	HUVEC	blood vessel
13	chr12:41408200-41426400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr12:41408200-41449800	Weak transcription	Brain Anterior Caudate	brain
15	chr12:41408400-41409000	Enhancers	A549	lung
16	chr12:41408400-41421400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr12:41408600-41409000	Enhancers	Colon Smooth Muscle	Colon
18	chr12:41408800-41428000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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