Variant report

Variant	rs7255952
Chromosome Location	chr19:37988797-37988798
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:37987631..37989871-chr19:37996181..37998149,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000188227	Chromatin interaction
ENSG00000266916	Chromatin interaction

Extended variants
information (count: 105 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:99)

rs_ID	r²[population]
rs1015848	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1015849	0.93[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1035479	0.84[EUR][1000 genomes]
rs10403582	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10404920	0.93[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap]
rs10404945	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs10405064	0.93[CEU][hapmap];0.92[CHB][hapmap];0.93[JPT][hapmap]
rs10405325	0.81[EUR][1000 genomes]
rs10405407	0.93[CEU][hapmap]
rs10406177	0.93[CEU][hapmap];0.88[JPT][hapmap];0.87[EUR][1000 genomes]
rs10407084	0.93[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10409204	0.93[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10411574	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10413602	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10414904	0.93[CEU][hapmap]
rs10415024	0.93[CEU][hapmap]
rs10415937	0.93[CEU][hapmap]
rs10417503	0.93[CEU][hapmap];0.82[JPT][hapmap]
rs10417844	0.86[CEU][hapmap]
rs10420430	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10420722	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10420754	0.93[CEU][hapmap];0.86[JPT][hapmap];0.93[EUR][1000 genomes]
rs10422074	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10422667	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10424574	0.93[CEU][hapmap];0.82[JPT][hapmap]
rs10426618	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11083426	0.91[EUR][1000 genomes]
rs12972252	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12979470	0.89[EUR][1000 genomes]
rs12981532	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13343471	0.93[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13343502	0.93[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13345116	0.93[CEU][hapmap]
rs1373991	0.93[CEU][hapmap]
rs1382357	0.93[CEU][hapmap];0.88[JPT][hapmap];0.97[EUR][1000 genomes]
rs1559229	0.93[CEU][hapmap];0.87[JPT][hapmap]
rs2045908	0.82[AFR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2081096	0.93[CEU][hapmap];0.88[JPT][hapmap];0.93[EUR][1000 genomes]
rs2112920	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2112922	0.88[EUR][1000 genomes]
rs2112923	0.93[CEU][hapmap];0.88[JPT][hapmap];0.91[EUR][1000 genomes]
rs2126977	1.00[CEU][hapmap];0.88[JPT][hapmap];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2279148	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs2279149	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs2291004	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2303131	0.93[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28373708	0.97[EUR][1000 genomes]
rs28538699	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28605784	0.95[EUR][1000 genomes]
rs28623164	0.89[EUR][1000 genomes]
rs2891699	0.93[CEU][hapmap];0.88[JPT][hapmap];0.89[EUR][1000 genomes]
rs35540940	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35777021	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3745765	0.93[CEU][hapmap]
rs3760825	0.93[CEU][hapmap];0.88[JPT][hapmap];0.91[EUR][1000 genomes]
rs3803895	0.84[EUR][1000 genomes]
rs4417644	0.93[CEU][hapmap];0.82[JPT][hapmap]
rs4452075	0.93[CEU][hapmap];0.88[JPT][hapmap]
rs4801759	0.93[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4801803	0.93[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4802766	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4802889	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4803195	0.91[EUR][1000 genomes]
rs4803210	0.88[CEU][hapmap]
rs4803229	0.93[CEU][hapmap];0.88[JPT][hapmap]
rs4803460	0.84[EUR][1000 genomes]
rs4803539	0.84[EUR][1000 genomes]
rs59224125	0.93[EUR][1000 genomes]
rs6508719	0.93[CEU][hapmap];0.88[JPT][hapmap]
rs6508732	1.00[CEU][hapmap];0.88[JPT][hapmap];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6508733	1.00[CEU][hapmap];0.88[JPT][hapmap];0.99[EUR][1000 genomes]
rs713256	0.93[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs7246993	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7247259	0.93[CEU][hapmap]
rs7248733	1.00[CEU][hapmap];0.88[JPT][hapmap];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7252099	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7252325	0.89[EUR][1000 genomes]
rs7252346	0.93[CEU][hapmap];0.88[JPT][hapmap];0.89[EUR][1000 genomes]
rs7253091	0.93[CEU][hapmap];0.88[JPT][hapmap];0.93[EUR][1000 genomes]
rs7253114	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs7255140	0.80[ASN][1000 genomes]
rs7255407	0.89[EUR][1000 genomes]
rs7255785	0.91[EUR][1000 genomes]
rs7255972	0.93[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7255996	0.91[EUR][1000 genomes]
rs7256130	0.86[EUR][1000 genomes]
rs7257672	0.93[CEU][hapmap]
rs7258692	0.93[CEU][hapmap]
rs73631095	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7408563	0.93[CEU][hapmap]
rs8106839	0.93[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8109038	1.00[CEU][hapmap];0.92[CHB][hapmap];0.93[JPT][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8109632	0.89[EUR][1000 genomes]
rs8111782	0.93[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs8112610	0.86[EUR][1000 genomes]
rs9304566	0.93[CEU][hapmap];0.82[JPT][hapmap]
rs9676739	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9676967	0.89[EUR][1000 genomes]
rs9917081	0.93[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv918028	chr19:37020645-38014526	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
2	esv2757695	chr19:37794850-38051606	Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	esv2758759	chr19:37794850-38051606	ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv833819	chr19:37899501-38051599	ZNF genes & repeats Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv1056753	chr19:37963714-38015943	Weak transcription Active TSS Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv579468	chr19:37977609-38293487	ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:37984800-37996400	Weak transcription	Fetal Heart	heart
2	chr19:37988200-37988800	ZNF genes & repeats	Primary T helper memory cells from peripheral blood 1	blood
3	chr19:37988200-37989000	ZNF genes & repeats	Brain Cingulate Gyrus	brain
4	chr19:37988200-37989000	ZNF genes & repeats	Brain Substantia Nigra	brain
5	chr19:37988200-37989000	ZNF genes & repeats	Skeletal Muscle Female	skeletal muscle
6	chr19:37988200-37989200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr19:37988200-37989200	ZNF genes & repeats	Adipose Nuclei	Adipose
8	chr19:37988200-37989200	ZNF genes & repeats	Liver	Liver
9	chr19:37988200-37989200	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
10	chr19:37988200-37989200	ZNF genes & repeats	Brain Dorsolateral Prefrontal Cortex	brain
11	chr19:37988400-37989200	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
12	chr19:37988400-37989200	ZNF genes & repeats	Fetal Brain Female	brain
13	chr19:37988600-37989000	ZNF genes & repeats	Left Ventricle	heart
14	chr19:37988600-37989000	ZNF genes & repeats	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links