Variant report

Variant	rs11204727
Chromosome Location	chr1:150759979-150759980
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:150759798..150761774-chr1:150772351..150774481,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000224690	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10305695	1.00[MKK][hapmap]
rs1053701	1.00[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap]
rs10788795	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10888396	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11204674	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs11204689	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11204700	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11204714	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11204715	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11576175	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12031458	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12032445	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12038403	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12045807	0.92[CEU][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs12728254	0.91[EUR][1000 genomes]
rs16832604	0.91[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap]
rs16840074	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1811698	0.91[ASN][1000 genomes]
rs1932864	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2134688	0.92[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.91[EUR][1000 genomes]
rs267736	0.92[CEU][hapmap];0.86[CHD][hapmap];0.81[JPT][hapmap];0.94[TSI][hapmap]
rs3738483	0.92[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.91[EUR][1000 genomes]
rs3754207	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3754210	0.92[CEU][hapmap];0.86[CHD][hapmap];0.81[JPT][hapmap];0.94[TSI][hapmap]
rs3768017	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3820541	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3820543	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4379678	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4970970	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs533928	0.80[EUR][1000 genomes]
rs55890313	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61817598	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61817599	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61817600	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61817649	0.80[EUR][1000 genomes]
rs6587515	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs6587517	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6661100	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6671703	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6679701	1.00[CEU][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];0.83[EUR][1000 genomes]
rs6684611	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6688248	0.80[EUR][1000 genomes]
rs6692277	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6696167	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72704624	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7517	0.92[CEU][hapmap];0.86[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs7517566	0.92[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.88[EUR][1000 genomes]
rs7520511	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7520516	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7529204	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7535848	0.80[EUR][1000 genomes]
rs7535975	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2829859	chr1:150608894-150937329	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	nsv872417	chr1:150618632-150759979	Strong transcription Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv872418	chr1:150683512-150860471	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
4	nsv437169	chr1:150738197-150816886	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv1001897	chr1:150743271-151241600	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
6	nsv535158	chr1:150743271-151241600	Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
7	esv1831388	chr1:150753239-150760996	Weak transcription Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv2788	chr1:150755334-150800785	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:150737200-150761800	Weak transcription	Spleen	Spleen
2	chr1:150744600-150768200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr1:150750600-150767600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr1:150755600-150760000	Weak transcription	K562	blood
5	chr1:150756200-150766800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr1:150756400-150767600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr1:150756600-150760200	Weak transcription	Ovary	ovary
8	chr1:150758000-150763800	Enhancers	Primary monocytes fromperipheralblood	blood
9	chr1:150758800-150768400	Weak transcription	Brain Germinal Matrix	brain
10	chr1:150759400-150760400	Weak transcription	Colonic Mucosa	Colon
11	chr1:150759600-150760200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr1:150759600-150760200	Enhancers	Primary neutrophils fromperipheralblood	blood
13	chr1:150759800-150760200	Enhancers	Primary B cells from cord blood	blood
14	chr1:150759800-150760600	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr1:150759800-150764800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood

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