Variant report

Variant	rs12043339
Chromosome Location	chr1:221857243-221857244
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:221856331..221858298-chr1:221862068..221864560,2	MCF-7	breast:
2	chr1:221856937..221858911-chr1:221881533..221884084,2	K562	blood:

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs10429944	0.84[ASN][1000 genomes]
rs10429945	0.84[ASN][1000 genomes]
rs10429946	0.84[ASN][1000 genomes]
rs10429956	0.97[ASN][1000 genomes]
rs10429957	0.87[ASN][1000 genomes]
rs10429958	0.87[ASN][1000 genomes]
rs10429960	0.90[ASN][1000 genomes]
rs10429961	0.87[ASN][1000 genomes]
rs10429963	0.84[ASN][1000 genomes]
rs10429964	0.84[ASN][1000 genomes]
rs10863644	0.87[ASN][1000 genomes]
rs10863645	0.87[ASN][1000 genomes]
rs10863646	0.84[ASN][1000 genomes]
rs11118802	0.82[ASN][1000 genomes]
rs11118806	0.92[ASN][1000 genomes]
rs11118807	0.82[ASN][1000 genomes]
rs11118808	0.82[ASN][1000 genomes]
rs11118809	0.82[ASN][1000 genomes]
rs11118810	0.92[ASN][1000 genomes]
rs11118811	0.82[ASN][1000 genomes]
rs11118812	0.87[ASN][1000 genomes]
rs11118813	0.87[ASN][1000 genomes]
rs11118814	0.87[ASN][1000 genomes]
rs11118815	0.87[ASN][1000 genomes]
rs11118816	0.87[ASN][1000 genomes]
rs11118817	0.97[ASN][1000 genomes]
rs11118818	0.87[ASN][1000 genomes]
rs11118819	0.87[ASN][1000 genomes]
rs11118821	0.87[ASN][1000 genomes]
rs11576646	0.87[ASN][1000 genomes]
rs11808469	0.87[ASN][1000 genomes]
rs11808503	0.87[ASN][1000 genomes]
rs11809184	0.87[ASN][1000 genomes]
rs11809818	0.87[ASN][1000 genomes]
rs11810697	0.87[ASN][1000 genomes]
rs11811485	0.87[ASN][1000 genomes]
rs11811644	0.87[ASN][1000 genomes]
rs12023345	0.87[ASN][1000 genomes]
rs12024440	0.87[ASN][1000 genomes]
rs12024464	0.87[ASN][1000 genomes]
rs12025878	0.87[ASN][1000 genomes]
rs12031670	0.87[ASN][1000 genomes]
rs12035928	0.82[ASN][1000 genomes]
rs12036305	0.82[ASN][1000 genomes]
rs12036766	0.95[ASN][1000 genomes]
rs12036771	0.97[ASN][1000 genomes]
rs12037629	0.92[ASN][1000 genomes]
rs12037802	0.92[ASN][1000 genomes]
rs12041614	0.87[ASN][1000 genomes]
rs12042290	0.87[ASN][1000 genomes]
rs12044981	0.97[ASN][1000 genomes]
rs12406074	0.92[ASN][1000 genomes]
rs12407358	0.92[ASN][1000 genomes]
rs12408488	0.82[ASN][1000 genomes]
rs12408495	0.82[ASN][1000 genomes]
rs13375747	0.87[ASN][1000 genomes]
rs13375841	0.87[ASN][1000 genomes]
rs13376168	0.85[ASN][1000 genomes]
rs13376174	0.87[ASN][1000 genomes]
rs13376254	0.87[ASN][1000 genomes]
rs13376595	0.87[ASN][1000 genomes]
rs1519464	0.87[ASN][1000 genomes]
rs1519465	0.87[ASN][1000 genomes]
rs1850831	0.87[ASN][1000 genomes]
rs1914947	0.82[ASN][1000 genomes]
rs1949508	0.82[ASN][1000 genomes]
rs2056289	0.81[ASN][1000 genomes]
rs34494638	0.87[ASN][1000 genomes]
rs4465212	0.82[ASN][1000 genomes]
rs58897885	0.87[ASN][1000 genomes]
rs60436564	0.87[ASN][1000 genomes]
rs61817912	0.82[ASN][1000 genomes]
rs61817913	0.82[ASN][1000 genomes]
rs61817924	0.87[ASN][1000 genomes]
rs61817926	0.87[ASN][1000 genomes]
rs61817941	0.87[ASN][1000 genomes]
rs61817945	0.87[ASN][1000 genomes]
rs61817946	0.87[ASN][1000 genomes]
rs61817947	0.87[ASN][1000 genomes]
rs61817948	0.87[ASN][1000 genomes]
rs6661401	0.87[ASN][1000 genomes]
rs6686877	0.82[ASN][1000 genomes]
rs6700504	0.92[ASN][1000 genomes]
rs7417317	0.87[ASN][1000 genomes]
rs7517462	0.87[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	nsv997685	chr1:220993527-221863416	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv535299	chr1:220993527-221863416	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv469786	chr1:221855871-222040335	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv482867	chr1:221855871-222040335	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:221846000-221861000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr1:221846000-221869400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr1:221856600-221858600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr1:221856800-221857800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr1:221857200-221857800	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr1:221857200-221857800	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr1:221857200-221858000	Enhancers	GM12878-XiMat	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links