Variant report

Variant	rs12322900
Chromosome Location	chr12:72353257-72353258
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:72353021..72353730-chr13:41888652..41889411,2	MCF-7	breast:

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10748188	0.91[EUR][1000 genomes]
rs10784946	0.90[EUR][1000 genomes]
rs10784947	0.87[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs10879345	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.85[AFR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10879346	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10879349	0.91[EUR][1000 genomes]
rs10879350	0.87[JPT][hapmap]
rs10879351	0.92[CEU][hapmap];0.82[JPT][hapmap];0.89[YRI][hapmap]
rs10879352	0.83[CEU][hapmap]
rs11179002	1.00[JPT][hapmap]
rs11179014	0.87[EUR][1000 genomes]
rs11179027	0.86[JPT][hapmap]
rs11179033	0.87[JPT][hapmap]
rs11179039	0.92[CEU][hapmap]
rs11834097	0.88[JPT][hapmap]
rs11834114	0.87[JPT][hapmap]
rs12229394	0.87[JPT][hapmap]
rs12319219	0.87[JPT][hapmap]
rs1352250	0.84[CEU][hapmap];0.86[YRI][hapmap]
rs1386498	0.82[CEU][hapmap];0.82[YRI][hapmap]
rs1532008	0.84[CHB][hapmap];0.87[JPT][hapmap];0.90[YRI][hapmap]
rs1843810	0.81[YRI][hapmap]
rs1843811	1.00[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];0.91[EUR][1000 genomes]
rs2171363	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2171365	0.86[EUR][1000 genomes]
rs2368049	0.91[CEU][hapmap];0.83[CHB][hapmap];0.83[JPT][hapmap];0.89[YRI][hapmap]
rs34708908	0.87[EUR][1000 genomes]
rs3903502	0.83[CEU][hapmap]
rs4362186	0.87[EUR][1000 genomes]
rs4531512	0.91[EUR][1000 genomes]
rs4641528	1.00[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs4760750	0.96[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.91[EUR][1000 genomes]
rs4760754	1.00[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap]
rs4760755	1.00[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap]
rs4760815	0.91[EUR][1000 genomes]
rs4760816	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.91[EUR][1000 genomes]
rs4760817	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs57986383	0.86[EUR][1000 genomes]
rs6582073	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.91[EUR][1000 genomes]
rs6582074	0.91[EUR][1000 genomes]
rs6582077	1.00[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap];0.91[EUR][1000 genomes]
rs6582078	0.92[CEU][hapmap];0.82[CHB][hapmap];0.82[JPT][hapmap];0.91[EUR][1000 genomes]
rs6582079	0.83[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs6582080	0.91[EUR][1000 genomes]
rs7305115	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.91[EUR][1000 genomes]
rs7309686	1.00[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.91[EUR][1000 genomes]
rs7954105	0.91[EUR][1000 genomes]
rs7954142	0.91[EUR][1000 genomes]
rs7955501	0.92[CEU][hapmap]
rs7963720	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7967686	1.00[CEU][hapmap];0.88[CHB][hapmap];0.83[JPT][hapmap];0.89[YRI][hapmap]
rs7969114	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.91[EUR][1000 genomes]
rs7978692	0.89[AFR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7979770	1.00[CEU][hapmap];0.84[CHB][hapmap];0.87[JPT][hapmap];0.90[YRI][hapmap]
rs9325202	0.83[CEU][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	nsv1048478	chr12:72145703-72401712	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv541530	chr12:72145703-72401712	Weak transcription ZNF genes & repeats Active TSS Genic enhancers Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv518498	chr12:72307616-72508779	Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
4	nsv1054578	chr12:72307616-72509341	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:72350800-72354400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr12:72351200-72353400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr12:72351400-72353400	Enhancers	NHLF	lung
4	chr12:72351400-72353600	Enhancers	Liver	Liver
5	chr12:72351600-72353400	Enhancers	Muscle Satellite Cultured Cells	--
6	chr12:72351600-72353400	Enhancers	NHDF-Ad	bronchial
7	chr12:72351800-72353400	Enhancers	H1 Cell Line	embryonic stem cell
8	chr12:72351800-72353400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr12:72351800-72353400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr12:72351800-72353800	Enhancers	iPS-20b Cell Line	embryonic stem cell
11	chr12:72351800-72354400	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr12:72351800-72354600	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr12:72351800-72354600	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr12:72351800-72354800	Enhancers	ES-I3 Cell Line	embryonic stem cell
15	chr12:72351800-72356000	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr12:72352000-72353400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr12:72352000-72353800	Enhancers	HUES6 Cell Line	embryonic stem cell
18	chr12:72352200-72353400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr12:72352200-72353400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr12:72352200-72353400	Enhancers	H9 Cell Line	embryonic stem cell
21	chr12:72352200-72353600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
22	chr12:72352400-72353400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr12:72352800-72353400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr12:72353000-72353400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr12:72353200-72353600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr12:72353200-72354600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links