Variant report

Variant	rs11906933
Chromosome Location	chr20:14124369-14124370
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1115801	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs11905096	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11905778	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11906598	0.82[GIH][hapmap]
rs11907796	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11908338	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11908401	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12480549	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12480944	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13433198	0.81[GIH][hapmap]
rs17191368	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs17263556	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1885948	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1969777	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]
rs2295413	0.84[GIH][hapmap]
rs2295414	0.84[GIH][hapmap]
rs2990505	0.92[CHB][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.83[MKK][hapmap];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2995908	0.85[CHB][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs3121497	0.92[CHB][hapmap];0.87[JPT][hapmap];0.91[ASN][1000 genomes]
rs3747928	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3848777	0.84[GIH][hapmap]
rs4814277	0.82[GIH][hapmap]
rs58353448	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59435348	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6042511	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap]
rs6042556	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6074695	1.00[CHB][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.96[ASN][1000 genomes]
rs6079316	1.00[CHB][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.99[ASN][1000 genomes]
rs6079319	1.00[CHB][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.99[ASN][1000 genomes]
rs6079321	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs6079322	0.98[ASN][1000 genomes]
rs6079332	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs6079338	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs6105211	0.82[GIH][hapmap]
rs6110136	0.82[GIH][hapmap]
rs6110140	0.82[GIH][hapmap]
rs6110153	0.82[GIH][hapmap]
rs6110157	0.85[GIH][hapmap]
rs61398751	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73903715	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8119793	0.85[ASW][hapmap];1.00[CHB][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.95[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1066810	chr20:13451869-14432454	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv912689	chr20:13570331-14155881	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv531479	chr20:13632491-14434432	Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv585438	chr20:14054163-14171905	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1057486	chr20:14077828-14469129	ZNF genes & repeats Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1058887	chr20:14080114-14173534	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv532514	chr20:14097780-14288315	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:14122600-14124400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr20:14122800-14124600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr20:14122800-14124800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr20:14123000-14124400	Enhancers	Hela-S3	cervix
5	chr20:14123200-14124400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr20:14123200-14125400	Weak transcription	Gastric	stomach
7	chr20:14123200-14129600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr20:14123400-14124400	Enhancers	Pancreatic Islets	Pancreatic Islet
9	chr20:14123600-14124600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr20:14123600-14124600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr20:14123600-14126400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr20:14123800-14124400	Enhancers	HMEC	breast
13	chr20:14123800-14125600	Enhancers	Fetal Intestine Small	intestine
14	chr20:14124000-14124400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr20:14124000-14124400	Enhancers	Muscle Satellite Cultured Cells	--
16	chr20:14124000-14124400	Enhancers	HSMMtube	muscle
17	chr20:14124200-14125600	Enhancers	Fetal Intestine Large	intestine

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