Variant report

Variant	rs6892081
Chromosome Location	chr5:15636890-15636891
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10053108	0.86[CHB][hapmap]
rs1025328	0.88[CEU][hapmap];0.83[EUR][1000 genomes]
rs1025329	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs10454921	0.91[CEU][hapmap]
rs10520817	0.83[CEU][hapmap]
rs10520818	0.83[CEU][hapmap]
rs12055198	0.85[ASN][1000 genomes]
rs12055284	0.88[YRI][hapmap]
rs12187510	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs12189306	0.85[EUR][1000 genomes]
rs12189348	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs12189375	0.81[CEU][hapmap]
rs12652729	1.00[CEU][hapmap];0.89[TSI][hapmap];0.88[EUR][1000 genomes]
rs12655307	0.91[CEU][hapmap];0.82[CHB][hapmap];0.81[JPT][hapmap];0.87[ASN][1000 genomes]
rs12656824	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs12658046	0.82[CHB][hapmap];0.84[CHD][hapmap];0.81[JPT][hapmap];0.87[ASN][1000 genomes]
rs12659622	0.91[CEU][hapmap];0.95[TSI][hapmap];0.88[EUR][1000 genomes]
rs13159972	0.84[CHD][hapmap]
rs13165880	0.91[CHB][hapmap]
rs1429034	0.88[YRI][hapmap]
rs1549696	1.00[CEU][hapmap]
rs1582998	0.91[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[GIH][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.95[TSI][hapmap];0.94[YRI][hapmap];0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16903918	0.91[CEU][hapmap]
rs17523716	0.91[CEU][hapmap]
rs17523908	0.91[CEU][hapmap]
rs17523929	0.90[CEU][hapmap]
rs17524082	0.86[CEU][hapmap]
rs17601883	0.91[CEU][hapmap]
rs17602097	0.91[CEU][hapmap]
rs17602228	0.91[CEU][hapmap]
rs17602477	0.81[CEU][hapmap]
rs17703964	0.86[CHD][hapmap];0.88[GIH][hapmap];0.81[JPT][hapmap];0.89[MEX][hapmap];0.88[ASN][1000 genomes]
rs17703976	0.91[CEU][hapmap];0.82[CHB][hapmap];0.86[CHD][hapmap];0.91[GIH][hapmap];0.81[JPT][hapmap];0.89[MEX][hapmap];0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1835128	0.91[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1835129	0.95[CHB][hapmap];0.95[JPT][hapmap];0.97[ASN][1000 genomes]
rs1991529	0.86[CHB][hapmap];0.86[CHD][hapmap]
rs2217346	0.86[CHB][hapmap];0.82[CHD][hapmap]
rs2914762	0.91[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2914763	0.93[ASN][1000 genomes]
rs2964271	0.82[YRI][hapmap]
rs2964272	0.82[YRI][hapmap]
rs4295390	0.91[CHB][hapmap]
rs4509020	0.91[CEU][hapmap]
rs4510585	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4510586	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4702087	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.88[YRI][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4702090	0.87[CHB][hapmap]
rs6877517	0.81[CEU][hapmap]
rs6878131	0.82[CHD][hapmap]
rs6879143	0.91[CEU][hapmap]
rs6891138	0.91[CHB][hapmap];0.80[CHD][hapmap]
rs6895158	0.84[ASN][1000 genomes]
rs6898779	0.82[CHD][hapmap]
rs7721607	0.88[ASN][1000 genomes]
rs7733676	0.91[CEU][hapmap]
rs7736101	0.94[YRI][hapmap]
rs891195	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs891196	0.94[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv516929	chr5:15087791-15870300	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1023068	chr5:15095221-15863583	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats 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	13 gene(s)	inside rSNPs	diseases
3	nsv869040	chr5:15097602-15866117	Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv530222	chr5:15151662-15851485	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv830214	chr5:15589809-15791032	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	esv3507774	chr5:15593461-15822407	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	esv3507776	chr5:15593461-15822407	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv1028089	chr5:15636285-15883910	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv537676	chr5:15636285-15883910	Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:15600600-15645400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr5:15627600-15648000	Weak transcription	Fetal Muscle Leg	muscle
3	chr5:15627800-15637000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr5:15631400-15645200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr5:15633600-15644600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr5:15633800-15637000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr5:15634000-15638000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr5:15635400-15637800	Enhancers	Brain Cingulate Gyrus	brain
9	chr5:15635600-15637200	Weak transcription	Psoas Muscle	Psoas
10	chr5:15635600-15641000	Weak transcription	Ovary	ovary
11	chr5:15635600-15642600	Weak transcription	Colon Smooth Muscle	Colon
12	chr5:15635600-15643800	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr5:15635600-15646800	Weak transcription	Stomach Smooth Muscle	stomach
14	chr5:15635800-15637600	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr5:15635800-15638200	Weak transcription	Right Atrium	heart
16	chr5:15635800-15640200	Weak transcription	Right Ventricle	heart
17	chr5:15635800-15643600	Weak transcription	Aorta	Aorta
18	chr5:15635800-15645000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr5:15636000-15637000	Weak transcription	Brain Angular Gyrus	brain
20	chr5:15636000-15637400	Weak transcription	Brain Anterior Caudate	brain
21	chr5:15636000-15638000	Weak transcription	Left Ventricle	heart
22	chr5:15636000-15638200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr5:15636000-15639400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr5:15636000-15640600	Weak transcription	Fetal Stomach	stomach
25	chr5:15636000-15644800	Weak transcription	HSMM	muscle
26	chr5:15636800-15637200	Weak transcription	Brain Hippocampus Middle	brain
27	chr5:15636800-15637400	Weak transcription	Fetal Heart	heart
28	chr5:15636800-15637800	Enhancers	Brain Substantia Nigra	brain
29	chr5:15636800-15638200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links