Variant report

Variant	rs9417264
Chromosome Location	chr10:38117570-38117571
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:38102329..38104964-chr10:38116969..38118969,2	MCF-7	breast:

Extended variants
information (count: 111 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:107)

rs_ID	r²[population]
rs1007133	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10827823	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10827824	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10827825	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10827828	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10827829	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10827831	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11011326	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11011328	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11011330	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11011331	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11011334	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11011354	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11011355	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11011363	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11011366	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11011370	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11011372	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11011378	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11011384	0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1148287	0.83[ASN][1000 genomes]
rs11492508	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11511139	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11511141	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11516808	0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11523837	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11595684	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11597286	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11599689	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1208633	0.83[ASN][1000 genomes]
rs1208645	0.97[ASN][1000 genomes]
rs1208683	0.92[ASN][1000 genomes]
rs1208695	0.93[ASN][1000 genomes]
rs1208716	0.93[ASN][1000 genomes]
rs1208770	0.92[ASN][1000 genomes]
rs1208779	0.93[ASN][1000 genomes]
rs1209425	0.89[ASN][1000 genomes]
rs1212108	0.93[ASN][1000 genomes]
rs12267169	0.92[ASN][1000 genomes]
rs12357391	0.88[ASN][1000 genomes]
rs12357418	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12358094	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12358108	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12359608	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12360411	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12570939	0.92[ASN][1000 genomes]
rs12571820	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12763390	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12763409	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12768391	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12781703	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12782327	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12783666	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12783722	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1322319	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1742235	0.92[ASN][1000 genomes]
rs1779015	0.92[ASN][1000 genomes]
rs1779150	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2076809	0.88[ASN][1000 genomes]
rs2092993	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2092995	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2103936	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2144845	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2245081	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2295872	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2738186	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2738187	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2738191	0.83[EUR][1000 genomes]
rs2738193	0.83[EUR][1000 genomes]
rs2738219	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2738222	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2749575	0.81[EUR][1000 genomes]
rs2749577	0.81[EUR][1000 genomes]
rs2749587	0.83[EUR][1000 genomes]
rs2749593	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2753877	0.92[ASN][1000 genomes]
rs2753878	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2799495	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2799496	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2799501	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2799505	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2799506	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2799507	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2891586	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34496143	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35872666	0.87[ASN][1000 genomes]
rs35951606	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3824584	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3824585	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61858625	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61858626	0.88[ASN][1000 genomes]
rs61859667	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61859679	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72639533	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9417261	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9417262	0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9417263	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9417265	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9417267	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9417268	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9418288	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9418289	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9418291	0.80[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs9418294	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9418297	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9418298	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9418299	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][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	nsv895030	chr10:37715737-38674609	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1045684	chr10:37765361-38426204	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv540564	chr10:37765361-38426204	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1040704	chr10:37940024-38451917	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:38103800-38118000	Weak transcription	Brain Cingulate Gyrus	brain
2	chr10:38111200-38118400	Weak transcription	HepG2	liver
3	chr10:38113200-38118000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr10:38113600-38117800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr10:38113600-38118000	Weak transcription	Brain Substantia Nigra	brain
6	chr10:38114000-38118800	Weak transcription	HSMMtube	muscle
7	chr10:38114000-38128800	ZNF genes & repeats	Liver	Liver
8	chr10:38114200-38119000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr10:38114400-38123600	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
10	chr10:38114400-38125600	ZNF genes & repeats	Primary T cells from cord blood	blood
11	chr10:38114400-38125800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr10:38114400-38130000	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
13	chr10:38114600-38120600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr10:38114800-38117800	Weak transcription	Placenta	Placenta
15	chr10:38114800-38120600	Weak transcription	Fetal Stomach	stomach
16	chr10:38115200-38118400	Weak transcription	Stomach Mucosa	stomach
17	chr10:38115400-38118000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr10:38115600-38129000	ZNF genes & repeats	A549	lung
19	chr10:38115600-38138200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr10:38115800-38118600	Strong transcription	Skeletal Muscle Male	skeletal muscle
21	chr10:38115800-38119000	Strong transcription	Rectal Mucosa Donor 29	rectum
22	chr10:38115800-38122800	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
23	chr10:38115800-38123000	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
24	chr10:38115800-38123000	ZNF genes & repeats	Aorta	Aorta
25	chr10:38115800-38123600	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
26	chr10:38115800-38132200	ZNF genes & repeats	Fetal Brain Female	brain
27	chr10:38116000-38117600	Strong transcription	Fetal Lung	lung
28	chr10:38116000-38117600	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr10:38116000-38118000	Strong transcription	Brain Germinal Matrix	brain
30	chr10:38116000-38118400	Strong transcription	Skeletal Muscle Female	skeletal muscle
31	chr10:38116000-38120000	Strong transcription	Left Ventricle	heart
32	chr10:38116000-38122800	ZNF genes & repeats	Adipose Nuclei	Adipose
33	chr10:38116000-38123000	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr10:38116000-38128800	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr10:38116200-38117800	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr10:38116200-38118000	Strong transcription	Fetal Intestine Large	intestine
37	chr10:38116200-38118000	Strong transcription	Rectal Smooth Muscle	rectum
38	chr10:38116200-38118000	Weak transcription	HSMM	muscle
39	chr10:38116200-38119000	Strong transcription	Fetal Kidney	kidney
40	chr10:38116200-38123600	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum
41	chr10:38116200-38127600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
42	chr10:38116200-38137800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr10:38116400-38118000	Weak transcription	Right Ventricle	heart
44	chr10:38116400-38119800	Strong transcription	Brain Angular Gyrus	brain
45	chr10:38116400-38120000	Strong transcription	Brain Anterior Caudate	brain
46	chr10:38116400-38120600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr10:38116400-38128400	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
48	chr10:38116600-38118000	Strong transcription	Stomach Smooth Muscle	stomach
49	chr10:38116600-38118600	Weak transcription	Fetal Thymus	thymus
50	chr10:38116600-38119400	Strong transcription	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links