Variant report

Variant	rs885174
Chromosome Location	chr9:72058052-72058053
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10217407	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs10283713	0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs10283788	0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs1029064	0.82[CHB][hapmap];0.92[JPT][hapmap]
rs1029065	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs10746594	0.85[JPT][hapmap]
rs10780360	0.94[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.82[ASN][1000 genomes]
rs10780361	0.94[CHB][hapmap];0.85[JPT][hapmap];0.82[ASN][1000 genomes]
rs10867403	0.89[YRI][hapmap]
rs10867477	0.85[ASN][1000 genomes]
rs10867481	0.86[ASN][1000 genomes]
rs10867647	0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs10867671	0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs10867672	0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs1113067	0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs11138400	1.00[YRI][hapmap]
rs11138419	1.00[YRI][hapmap]
rs11138566	0.86[ASN][1000 genomes]
rs11138581	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11138722	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11138830	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11138843	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11138927	0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs11138941	1.00[JPT][hapmap]
rs11138980	0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs11138986	0.83[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs11139043	0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs11139044	0.81[AMR][1000 genomes]
rs11139048	0.81[AMR][1000 genomes]
rs11139049	0.81[AMR][1000 genomes]
rs11139050	0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs11139160	0.83[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs11139181	1.00[JPT][hapmap]
rs11139285	0.86[JPT][hapmap]
rs11788742	0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs12235168	0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs12238067	1.00[JPT][hapmap]
rs12336795	0.81[AMR][1000 genomes]
rs12341615	0.81[AMR][1000 genomes]
rs12344522	0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs12345500	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs12347818	0.81[AMR][1000 genomes]
rs12348063	0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs12349176	0.81[AMR][1000 genomes]
rs1331972	0.86[ASN][1000 genomes]
rs1331979	0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs2001699	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2244720	1.00[YRI][hapmap]
rs2297421	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs28564328	0.92[ASN][1000 genomes]
rs3793613	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3858105	0.81[JPT][hapmap]
rs3897966	0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs4323532	0.81[AMR][1000 genomes]
rs4744570	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs4744886	0.81[JPT][hapmap]
rs4744895	0.84[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs4744901	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4744902	0.88[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs4744904	0.85[JPT][hapmap]
rs4744910	1.00[JPT][hapmap]
rs4744911	1.00[JPT][hapmap]
rs58898712	0.81[AMR][1000 genomes]
rs62567192	0.81[AMR][1000 genomes]
rs62567205	0.81[AMR][1000 genomes]
rs62567206	0.81[AMR][1000 genomes]
rs62570234	0.80[ASN][1000 genomes]
rs62570239	0.82[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs62570245	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6559488	0.81[JPT][hapmap]
rs6559489	0.81[JPT][hapmap]
rs6559513	0.90[YRI][hapmap]
rs7043451	0.84[JPT][hapmap]
rs7044071	0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs7046199	0.85[JPT][hapmap]
rs7357615	0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs7470375	0.81[AMR][1000 genomes]
rs7850384	0.83[AMR][1000 genomes]
rs932967	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817406	chr9:71675454-72179318	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv1047593	chr9:71971536-72180583	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1035633	chr9:71995963-72176984	Weak transcription Genic enhancers Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1048650	chr9:72028458-72179847	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1048256	chr9:72032381-72067786	ZNF genes & repeats Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1045239	chr9:72032381-72067942	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv1041436	chr9:72032381-72069314	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv1052872	chr9:72040184-72081554	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv1037109	chr9:72040184-72120270	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv1039966	chr9:72057304-72181564	Weak transcription Enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72036600-72082600	Weak transcription	Rectal Smooth Muscle	rectum
2	chr9:72041200-72069600	Weak transcription	Gastric	stomach
3	chr9:72042000-72070400	Weak transcription	Spleen	Spleen
4	chr9:72042800-72063800	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr9:72043200-72063800	Weak transcription	Brain Substantia Nigra	brain
6	chr9:72044200-72084400	Weak transcription	Fetal Intestine Small	intestine
7	chr9:72045000-72084400	Weak transcription	Fetal Intestine Large	intestine
8	chr9:72045800-72064200	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr9:72046400-72085600	Weak transcription	Colon Smooth Muscle	Colon
10	chr9:72047000-72081800	Weak transcription	Fetal Kidney	kidney
11	chr9:72048000-72068600	Weak transcription	Left Ventricle	heart
12	chr9:72049000-72059000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr9:72049200-72059000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr9:72054000-72073200	Weak transcription	Right Ventricle	heart
15	chr9:72055200-72073000	Strong transcription	Liver	Liver
16	chr9:72055400-72059400	Strong transcription	Fetal Brain Female	brain
17	chr9:72055400-72059600	Strong transcription	Ovary	ovary
18	chr9:72055600-72064000	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr9:72056000-72082600	Weak transcription	Pancreas	Pancrea
20	chr9:72056200-72058600	Enhancers	Fetal Muscle Leg	muscle
21	chr9:72056200-72059000	Weak transcription	Fetal Lung	lung
22	chr9:72056200-72063000	Weak transcription	Brain Cingulate Gyrus	brain
23	chr9:72056400-72061600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr9:72056400-72080800	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr9:72056600-72058400	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr9:72056600-72060400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr9:72056600-72060600	Weak transcription	Primary T cells from cord blood	blood
28	chr9:72056600-72061000	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr9:72056600-72062400	Weak transcription	Brain Angular Gyrus	brain
30	chr9:72056800-72058200	Genic enhancers	Skeletal Muscle Male	skeletal muscle
31	chr9:72056800-72058200	Enhancers	HSMMtube	muscle
32	chr9:72056800-72058400	Enhancers	Fetal Muscle Trunk	muscle
33	chr9:72056800-72058800	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr9:72057000-72058400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr9:72057000-72061600	Weak transcription	Fetal Thymus	thymus
36	chr9:72057200-72060600	Weak transcription	Fetal Brain Male	brain
37	chr9:72057200-72061600	Weak transcription	Aorta	Aorta
38	chr9:72057200-72061800	Weak transcription	Brain Hippocampus Middle	brain
39	chr9:72057200-72063600	Weak transcription	Brain Anterior Caudate	brain
40	chr9:72057200-72063600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr9:72057200-72063600	Weak transcription	Stomach Smooth Muscle	stomach
42	chr9:72057400-72058400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr9:72057400-72058400	Enhancers	Fetal Heart	heart
44	chr9:72057400-72059000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
45	chr9:72057400-72059400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr9:72057400-72060000	Enhancers	NHDF-Ad	bronchial
47	chr9:72057400-72061200	Weak transcription	Brain Germinal Matrix	brain
48	chr9:72057400-72061400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr9:72057400-72062200	Weak transcription	Fetal Stomach	stomach
50	chr9:72057400-72063400	Weak transcription	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links