Variant report

Variant	rs1150874
Chromosome Location	chr6:54058704-54058705
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 113 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:109)

rs_ID	r²[population]
rs10080252	1.00[CEU][hapmap];0.92[JPT][hapmap];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10155669	1.00[CEU][hapmap];0.83[CHB][hapmap];0.92[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10456172	0.86[ASN][1000 genomes]
rs10484647	1.00[CEU][hapmap];0.92[JPT][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10484648	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs10484649	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs1074639	0.86[ASN][1000 genomes]
rs10948803	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs1150875	1.00[CEU][hapmap];0.95[CHB][hapmap];0.80[YRI][hapmap];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1150880	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1150884	1.00[CEU][hapmap];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11757700	0.89[CHB][hapmap];0.92[JPT][hapmap];0.85[ASN][1000 genomes]
rs11963558	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs11965480	0.92[EUR][1000 genomes]
rs11966090	0.96[EUR][1000 genomes]
rs11966747	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11969471	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11969948	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs12177981	0.86[EUR][1000 genomes]
rs12661972	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1299293	1.00[CEU][hapmap];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1340664	1.00[CEU][hapmap];0.84[CHB][hapmap];0.92[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1340665	1.00[CEU][hapmap];0.84[CHB][hapmap];0.92[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1340667	1.00[CEU][hapmap];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1342831	1.00[CEU][hapmap];0.92[JPT][hapmap];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1417389	0.90[CHB][hapmap];0.93[JPT][hapmap];0.80[ASN][1000 genomes]
rs1575220	0.84[ASN][1000 genomes]
rs16869492	0.84[JPT][hapmap];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16884761	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs16884835	0.96[EUR][1000 genomes]
rs16884943	1.00[CEU][hapmap];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16884946	1.00[CEU][hapmap];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16885091	1.00[CEU][hapmap];0.92[JPT][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17755305	0.96[EUR][1000 genomes]
rs17755375	1.00[CEU][hapmap];0.84[CHB][hapmap];0.92[JPT][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17828437	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1856829	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1935839	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2145758	0.85[ASN][1000 genomes]
rs2145761	1.00[CEU][hapmap];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2180931	0.90[CHB][hapmap];0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs2185505	0.90[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs2275769	1.00[CEU][hapmap];0.92[JPT][hapmap];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2275770	0.88[JPT][hapmap];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2754794	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2754795	1.00[CEU][hapmap];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2754798	1.00[CEU][hapmap];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2754802	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2792630	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2792631	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2792634	1.00[CEU][hapmap];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2792635	1.00[CEU][hapmap];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2792636	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2792638	1.00[CEU][hapmap];0.84[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2792646	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28847288	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34961553	0.85[ASN][1000 genomes]
rs41530746	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs4329099	1.00[CEU][hapmap];0.92[JPT][hapmap];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4712059	0.90[CHB][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs4715443	0.96[EUR][1000 genomes]
rs55689719	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs55760696	0.96[EUR][1000 genomes]
rs59132111	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6458988	0.84[CHB][hapmap];0.86[JPT][hapmap];0.85[ASN][1000 genomes]
rs6458989	0.85[ASN][1000 genomes]
rs6905950	1.00[CEU][hapmap];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6924913	1.00[CEU][hapmap];0.92[JPT][hapmap];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6932559	0.89[CHB][hapmap];0.84[JPT][hapmap];0.84[ASN][1000 genomes]
rs6934602	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6934690	1.00[CEU][hapmap];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6937413	0.90[CHB][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs73741487	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7740331	0.84[ASN][1000 genomes]
rs7751241	1.00[CEU][hapmap];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs816382	0.90[CHB][hapmap];0.92[JPT][hapmap];0.85[ASN][1000 genomes]
rs816383	0.90[CHB][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs816384	0.86[ASN][1000 genomes]
rs816385	0.89[CHB][hapmap];0.92[JPT][hapmap];0.86[ASN][1000 genomes]
rs9283919	1.00[CEU][hapmap];0.92[JPT][hapmap];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9296740	0.85[CHB][hapmap]
rs9296741	0.84[ASN][1000 genomes]
rs9296742	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9296743	0.84[ASN][1000 genomes]
rs9395916	0.89[CHB][hapmap];0.92[JPT][hapmap];0.86[ASN][1000 genomes]
rs9395917	0.89[CHB][hapmap];0.92[JPT][hapmap]
rs9395918	0.81[ASN][1000 genomes]
rs9464027	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9464028	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9464030	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9464034	1.00[CEU][hapmap];0.92[JPT][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9464042	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9464043	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9464045	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9464046	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9474746	1.00[CEU][hapmap]
rs9474748	1.00[CEU][hapmap];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9474754	1.00[CEU][hapmap];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9474755	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9474762	1.00[CEU][hapmap];0.92[JPT][hapmap];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9474765	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9474766	1.00[CEU][hapmap];0.91[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9474768	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9474771	1.00[CEU][hapmap];0.91[JPT][hapmap];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9474772	1.00[CEU][hapmap];0.92[JPT][hapmap];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9474773	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9474774	1.00[CEU][hapmap];0.92[JPT][hapmap];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9885975	1.00[CEU][hapmap];0.92[JPT][hapmap];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9942457	1.00[CEU][hapmap];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1067663	chr6:53796341-54449718	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv529158	chr6:53796341-54449718	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv603110	chr6:53885918-54103794	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1017633	chr6:53935336-54118476	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:53998000-54099200	Weak transcription	Psoas Muscle	Psoas
2	chr6:54045800-54069200	Weak transcription	Fetal Heart	heart
3	chr6:54047200-54069600	Weak transcription	Right Ventricle	heart
4	chr6:54047400-54069600	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr6:54055200-54069600	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr6:54056200-54059000	Enhancers	Adipose Nuclei	Adipose
7	chr6:54057400-54059600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr6:54057600-54059400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr6:54057600-54059400	Enhancers	Muscle Satellite Cultured Cells	--
10	chr6:54057800-54058800	Enhancers	Left Ventricle	heart
11	chr6:54057800-54058800	Enhancers	Right Atrium	heart
12	chr6:54057800-54059000	Enhancers	Osteobl	bone
13	chr6:54057800-54059400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr6:54057800-54059400	Enhancers	NHLF	lung
15	chr6:54058000-54059000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr6:54058000-54059200	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr6:54058000-54059400	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr6:54058000-54059400	Enhancers	HSMM	muscle
19	chr6:54058000-54059600	Enhancers	HUES64 Cell Line	embryonic stem cell
20	chr6:54058000-54059800	Enhancers	HUES48 Cell Line	embryonic stem cell
21	chr6:54058200-54059400	Enhancers	iPS-18 Cell Line	embryonic stem cell
22	chr6:54058200-54059400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr6:54058200-54059800	Enhancers	iPS-20b Cell Line	embryonic stem cell
24	chr6:54058400-54058800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr6:54058400-54058800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr6:54058400-54058800	Enhancers	Aorta	Aorta
27	chr6:54058400-54059000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
28	chr6:54058400-54059200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
29	chr6:54058400-54059200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr6:54058400-54059200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr6:54058400-54059200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr6:54058400-54059200	Enhancers	Cortex derived primary cultured neurospheres	brain
33	chr6:54058400-54059200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr6:54058400-54059200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
35	chr6:54058400-54059200	Enhancers	Fetal Muscle Leg	muscle
36	chr6:54058400-54059400	Enhancers	HSMMtube	muscle
37	chr6:54058400-54059400	Enhancers	NH-A	brain
38	chr6:54058400-54059600	Enhancers	HUVEC	blood vessel
39	chr6:54058600-54059000	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
40	chr6:54058600-54059000	Enhancers	H1 Cell Line	embryonic stem cell
41	chr6:54058600-54059000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr6:54058600-54059200	Enhancers	Primary monocytes fromperipheralblood	blood
43	chr6:54058600-54059200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr6:54058600-54059200	Enhancers	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links