Variant report

Variant	rs2288209
Chromosome Location	chr2:152419038-152419039
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10497085	0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11680579	0.96[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11689442	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11690396	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11695285	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11902616	0.85[CHD][hapmap]
rs13393021	1.00[YRI][hapmap]
rs16830040	1.00[AMR][1000 genomes]
rs16830085	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs16830094	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs16830106	0.85[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs16830109	0.85[CHB][hapmap];0.83[ASN][1000 genomes]
rs16830114	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs16830117	0.85[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs16830125	0.90[JPT][hapmap]
rs16830128	0.85[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs16830130	0.85[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs16830177	0.84[ASW][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.87[YRI][hapmap]
rs16830186	0.90[JPT][hapmap];0.93[YRI][hapmap]
rs16830192	0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[ASN][1000 genomes]
rs2288197	0.85[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2288200	0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[ASN][1000 genomes]
rs2288205	0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[ASN][1000 genomes]
rs35227368	0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs35885198	0.80[CHD][hapmap]
rs4364020	1.00[ASN][1000 genomes]
rs4544436	0.82[ASW][hapmap];0.89[MKK][hapmap];0.86[YRI][hapmap];1.00[AMR][1000 genomes]
rs4602223	0.86[YRI][hapmap];1.00[AMR][1000 genomes]
rs56401060	1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6717213	0.81[CHD][hapmap]
rs6724796	1.00[YRI][hapmap]
rs6731486	1.00[YRI][hapmap]
rs6739271	0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs73967546	1.00[AMR][1000 genomes]
rs73967547	1.00[AMR][1000 genomes]
rs73967562	1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs73967566	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73967569	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[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	nsv1013484	chr2:152028515-152473913	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv535983	chr2:152028515-152473913	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv999748	chr2:152135514-152476396	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
4	nsv934136	chr2:152308156-152664443	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
5	esv3693428	chr2:152320932-152434896	Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1005746	chr2:152361972-153059840	Strong transcription Weak transcription Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
7	nsv535984	chr2:152361972-153059840	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
8	esv1793381	chr2:152370040-152463631	Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	nsv10198	chr2:152370068-152463644	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
10	nsv2974	chr2:152401495-152499455	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	nsv469804	chr2:152404429-152570882	Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
12	nsv482520	chr2:152404429-152570882	Weak transcription Genic enhancers Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
13	nsv932914	chr2:152408090-152425360	Weak transcription Strong transcription Enhancers Genic enhancers	Chromatin interactive region	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	chr2:152343200-152422200	Weak transcription	Primary B cells from cord blood	blood
2	chr2:152360800-152424400	Weak transcription	Brain Anterior Caudate	brain
3	chr2:152371400-152421000	Weak transcription	Pancreas	Pancrea
4	chr2:152383200-152424000	Weak transcription	Primary B cells from peripheral blood	blood
5	chr2:152385800-152426800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr2:152406000-152425800	Weak transcription	Aorta	Aorta
7	chr2:152409400-152437000	Weak transcription	Psoas Muscle	Psoas
8	chr2:152416200-152427400	Strong transcription	Fetal Muscle Trunk	muscle
9	chr2:152416200-152434400	Strong transcription	Fetal Muscle Leg	muscle
10	chr2:152417200-152427200	Strong transcription	HSMMtube	muscle
11	chr2:152417800-152421600	Genic enhancers	Skeletal Muscle Male	skeletal muscle
12	chr2:152418400-152424000	Genic enhancers	Skeletal Muscle Female	skeletal muscle

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