Variant report

Variant	rs11138722
Chromosome Location	chr9:72067736-72067737
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:72059861..72061593-chr9:72066565..72068301,2	MCF-7	breast:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10217407	0.88[CEU][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs10283713	1.00[CEU][hapmap];0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs10283788	1.00[CEU][hapmap];0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs1029064	1.00[CEU][hapmap]
rs1029065	1.00[CEU][hapmap];0.85[JPT][hapmap];0.83[AMR][1000 genomes]
rs10867647	1.00[CEU][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs10867671	1.00[CEU][hapmap];0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs10867672	1.00[CEU][hapmap];0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs1113067	1.00[CEU][hapmap];0.85[JPT][hapmap]
rs11138581	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11138830	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11138843	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11138927	1.00[CEU][hapmap];0.92[JPT][hapmap];0.81[ASN][1000 genomes]
rs11138941	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11138980	1.00[CEU][hapmap];0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs11138986	1.00[CEU][hapmap];0.91[JPT][hapmap]
rs11139043	1.00[CEU][hapmap];0.85[JPT][hapmap]
rs11139050	1.00[CEU][hapmap];0.85[JPT][hapmap]
rs11139160	1.00[CEU][hapmap];0.92[JPT][hapmap]
rs11139181	1.00[CEU][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs11139285	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs11788742	1.00[CEU][hapmap];0.85[JPT][hapmap]
rs12235168	1.00[CEU][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs12238067	1.00[CEU][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs12344522	1.00[CEU][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs12348063	1.00[CEU][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs1331979	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2001699	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2297421	1.00[CEU][hapmap];0.92[JPT][hapmap];0.80[ASN][1000 genomes]
rs28564328	0.85[ASN][1000 genomes]
rs3793613	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3897966	0.88[CEU][hapmap];0.85[JPT][hapmap]
rs4744570	1.00[CEU][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs4744901	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4744903	0.82[AMR][1000 genomes]
rs4744904	1.00[CEU][hapmap];0.82[AMR][1000 genomes]
rs4744910	1.00[CEU][hapmap];0.85[JPT][hapmap]
rs4744911	1.00[CEU][hapmap];0.85[JPT][hapmap]
rs58898712	0.81[ASN][1000 genomes]
rs62570239	0.84[EUR][1000 genomes]
rs62570245	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7039417	0.80[ASN][1000 genomes]
rs7044071	1.00[CEU][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs7357615	1.00[CEU][hapmap];0.85[JPT][hapmap]
rs885174	0.88[EUR][1000 genomes];0.88[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:51 , 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	chr9:72044200-72084400	Weak transcription	Fetal Intestine Small	intestine
5	chr9:72045000-72084400	Weak transcription	Fetal Intestine Large	intestine
6	chr9:72046400-72085600	Weak transcription	Colon Smooth Muscle	Colon
7	chr9:72047000-72081800	Weak transcription	Fetal Kidney	kidney
8	chr9:72048000-72068600	Weak transcription	Left Ventricle	heart
9	chr9:72054000-72073200	Weak transcription	Right Ventricle	heart
10	chr9:72055200-72073000	Strong transcription	Liver	Liver
11	chr9:72056000-72082600	Weak transcription	Pancreas	Pancrea
12	chr9:72056400-72080800	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr9:72058200-72080200	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr9:72058400-72070600	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr9:72059400-72072400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr9:72059400-72080200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr9:72059600-72069600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr9:72061000-72070000	Strong transcription	Brain Inferior Temporal Lobe	brain
19	chr9:72061200-72071400	Strong transcription	Brain Germinal Matrix	brain
20	chr9:72062200-72068800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr9:72062200-72070200	Strong transcription	Fetal Stomach	stomach
22	chr9:72062200-72072600	Strong transcription	Cortex derived primary cultured neurospheres	brain
23	chr9:72062800-72072400	Strong transcription	Ovary	ovary
24	chr9:72063800-72070000	Strong transcription	Brain Substantia Nigra	brain
25	chr9:72064600-72068600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr9:72064600-72084200	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr9:72064600-72084200	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr9:72064800-72069400	Weak transcription	Adipose Nuclei	Adipose
29	chr9:72064800-72071400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr9:72064800-72083800	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr9:72065600-72068200	Weak transcription	Primary T cells from cord blood	blood
32	chr9:72065600-72068800	Strong transcription	Brain Angular Gyrus	brain
33	chr9:72065800-72071400	Strong transcription	Fetal Brain Female	brain
34	chr9:72066000-72070000	Strong transcription	Brain Hippocampus Middle	brain
35	chr9:72066200-72071400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr9:72066200-72081000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr9:72066400-72067800	Strong transcription	Fetal Muscle Trunk	muscle
38	chr9:72066400-72075400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
39	chr9:72066600-72068400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr9:72066800-72075000	Weak transcription	Fetal Brain Male	brain
41	chr9:72067000-72068800	Weak transcription	Brain Anterior Caudate	brain
42	chr9:72067400-72067800	Weak transcription	Stomach Smooth Muscle	stomach
43	chr9:72067400-72068000	Strong transcription	Fetal Lung	lung
44	chr9:72067400-72068400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr9:72067400-72069400	Weak transcription	Aorta	Aorta
46	chr9:72067400-72069600	Weak transcription	Fetal Muscle Leg	muscle
47	chr9:72067400-72069800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
48	chr9:72067400-72070000	Weak transcription	Brain Cingulate Gyrus	brain
49	chr9:72067400-72070400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr9:72067400-72078800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links