Variant report

Variant	rs1900936
Chromosome Location	chr2:142875500-142875501
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	chr2:142874759..142876508-chr2:142879340..142881781,2	MCF-7	breast:

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10175827	0.83[JPT][hapmap]
rs10179841	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs10496912	0.85[JPT][hapmap]
rs10496913	0.95[CHB][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]
rs11680286	0.83[YRI][hapmap]
rs11691560	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs11691595	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs12470890	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs12472834	0.97[ASN][1000 genomes]
rs12613064	0.84[JPT][hapmap]
rs12619411	0.89[CHB][hapmap]
rs12988578	0.88[ASN][1000 genomes]
rs13024219	0.99[ASN][1000 genomes]
rs13429550	0.82[JPT][hapmap]
rs1349219	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs1349221	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs1375606	0.85[CHB][hapmap]
rs1375609	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs1375611	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1375612	0.85[JPT][hapmap];0.83[YRI][hapmap];0.85[ASN][1000 genomes]
rs1375613	0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs1375614	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1449476	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs1449480	0.84[CHB][hapmap];0.86[JPT][hapmap]
rs1449482	0.81[YRI][hapmap]
rs1449503	0.80[CHB][hapmap]
rs16848107	0.84[JPT][hapmap]
rs17826042	0.85[JPT][hapmap]
rs1868542	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs2167053	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs2290140	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2381203	0.81[CHB][hapmap];0.86[JPT][hapmap];0.85[ASN][1000 genomes]
rs4662219	0.84[CEU][hapmap];0.95[CHB][hapmap];0.92[JPT][hapmap];0.81[EUR][1000 genomes]
rs4662396	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62155638	0.85[ASN][1000 genomes]
rs6707136	0.96[ASN][1000 genomes]
rs6712994	0.88[EUR][1000 genomes]
rs6744928	0.84[CEU][hapmap];0.90[CHB][hapmap];0.82[EUR][1000 genomes]
rs736602	0.90[CHB][hapmap]
rs7581031	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs7586417	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs7608258	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs7609479	0.84[CHB][hapmap];0.86[JPT][hapmap]
rs970600	0.92[JPT][hapmap]
rs970601	0.92[JPT][hapmap]
rs9973706	0.86[JPT][hapmap]

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:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:142870000-142878400	Weak transcription	Brain Hippocampus Middle	brain
2	chr2:142870800-142877400	Weak transcription	Brain Anterior Caudate	brain
3	chr2:142875200-142875600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr2:142875200-142876400	Enhancers	Brain Substantia Nigra	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links