Variant report

Variant	rs1011862
Chromosome Location	chr2:142861315-142861316
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:142856831..142859163-chr2:142860211..142863049,2	MCF-7	breast:
2	chr2:142860532..142863086-chr2:142865572..142867375,2	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1001629	0.89[ASN][1000 genomes]
rs10173643	0.95[ASN][1000 genomes]
rs10186258	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10203924	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10803489	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11683745	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12472834	0.86[EUR][1000 genomes]
rs13000270	0.84[ASN][1000 genomes]
rs13024219	0.82[EUR][1000 genomes]
rs1349219	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1349220	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1349221	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1349222	0.87[ASN][1000 genomes]
rs1375606	0.90[ASN][1000 genomes]
rs1375609	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1449480	0.95[ASN][1000 genomes]
rs1449481	0.84[ASN][1000 genomes]
rs1449485	0.87[ASN][1000 genomes]
rs1900935	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2167053	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2290140	0.80[EUR][1000 genomes]
rs4662219	0.89[ASN][1000 genomes]
rs4662373	0.84[ASN][1000 genomes]
rs4662389	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62155598	0.87[ASN][1000 genomes]
rs6707136	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6712994	0.97[ASN][1000 genomes]
rs6744928	0.88[ASN][1000 genomes]
rs6754907	0.80[ASN][1000 genomes]
rs7565655	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7586417	0.89[ASN][1000 genomes]
rs7609479	0.95[ASN][1000 genomes]
rs9287332	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs997123	0.86[ASN][1000 genomes]
rs9973706	0.92[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	nsv997274	chr2:142760393-143599193	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv526107	chr2:142768518-142884248	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv875254	chr2:142833327-142931146	Bivalent/Poised TSS Active TSS Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1006247	chr2:142851056-143289465	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:142857400-142862800	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr2:142858800-142861400	Weak transcription	Brain Germinal Matrix	brain
3	chr2:142858800-142861600	Weak transcription	Hela-S3	cervix
4	chr2:142859800-142861400	Weak transcription	Brain Hippocampus Middle	brain
5	chr2:142860000-142861400	Weak transcription	Brain Cingulate Gyrus	brain
6	chr2:142860800-142863000	Enhancers	Brain Angular Gyrus	brain
7	chr2:142861000-142861400	Enhancers	Brain Substantia Nigra	brain
8	chr2:142861000-142862600	Enhancers	Brain Inferior Temporal Lobe	brain
9	chr2:142861200-142861400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
10	chr2:142861200-142862200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr2:142861200-142862200	Enhancers	Brain Anterior Caudate	brain

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