Variant report

Variant	rs12633494
Chromosome Location	chr3:61145050-61145051
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10510864	0.82[CEU][hapmap];0.81[MEX][hapmap];0.92[TSI][hapmap]
rs10866044	0.82[CHB][hapmap];0.93[CHD][hapmap];0.80[JPT][hapmap];0.88[ASN][1000 genomes]
rs11130818	0.88[CHD][hapmap];0.81[ASN][1000 genomes]
rs11130819	0.88[ASN][1000 genomes]
rs11707813	0.93[CHD][hapmap];0.81[ASN][1000 genomes]
rs11711938	0.85[ASN][1000 genomes]
rs11716189	0.85[ASN][1000 genomes]
rs11720347	0.86[CHD][hapmap];0.81[ASN][1000 genomes]
rs12494269	0.80[ASN][1000 genomes]
rs12494967	1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.84[GIH][hapmap];0.90[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12497257	0.82[CEU][hapmap]
rs12498118	0.82[CEU][hapmap]
rs12632475	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12637792	0.89[CHB][hapmap];0.94[JPT][hapmap];0.92[ASN][1000 genomes]
rs13087102	0.85[ASN][1000 genomes]
rs13323559	0.86[ASN][1000 genomes]
rs1403968	0.82[CHB][hapmap];0.80[JPT][hapmap];0.84[ASN][1000 genomes]
rs17064628	0.82[CEU][hapmap]
rs17064657	0.82[CEU][hapmap];0.81[MEX][hapmap];0.92[TSI][hapmap]
rs1851784	1.00[CEU][hapmap];0.92[TSI][hapmap]
rs1880218	0.82[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.90[MEX][hapmap];0.84[TSI][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28735912	0.81[ASN][1000 genomes]
rs2886260	0.83[ASN][1000 genomes]
rs4688292	0.81[ASN][1000 genomes]
rs4688324	0.82[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.82[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61440939	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9875504	0.82[CHB][hapmap];0.80[JPT][hapmap];0.88[ASN][1000 genomes]
rs9876185	0.83[CHB][hapmap];0.93[CHD][hapmap];0.80[JPT][hapmap];0.88[ASN][1000 genomes]
rs9877396	0.90[CHD][hapmap];0.82[ASN][1000 genomes]
rs9877573	0.85[ASN][1000 genomes]
rs9881340	0.86[ASN][1000 genomes]
rs9917837	0.83[CHB][hapmap];0.93[CHD][hapmap];0.80[JPT][hapmap];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2759152	chr3:60781943-61220809	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv948633	chr3:60993915-61171279	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv834710	chr3:60995631-61148157	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv2757873	chr3:61019003-61185558	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv876866	chr3:61054494-61310328	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv876867	chr3:61054494-61474575	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv432423	chr3:61100255-61606060	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
8	nsv1000378	chr3:61103229-61238089	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv590425	chr3:61132698-61186550	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv1012435	chr3:61136874-61181318	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
11	nsv1014142	chr3:61136874-61184782	Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	esv2756994	chr3:61144427-61220809	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
13	nsv876868	chr3:61145050-61282503	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:61140400-61146000	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr3:61141800-61150800	Weak transcription	Brain Hippocampus Middle	brain
3	chr3:61141800-61152200	Weak transcription	Psoas Muscle	Psoas
4	chr3:61141800-61158400	Weak transcription	Pancreas	Pancrea
5	chr3:61142000-61145600	Weak transcription	Fetal Lung	lung
6	chr3:61142000-61150400	Weak transcription	Brain Angular Gyrus	brain
7	chr3:61142200-61145800	Weak transcription	Fetal Heart	heart
8	chr3:61143200-61145600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr3:61143400-61145600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr3:61144800-61150400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr3:61144800-61153400	Weak transcription	Fetal Kidney	kidney
12	chr3:61144800-61157600	Weak transcription	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links