Variant report

Variant	rs10900253
Chromosome Location	chr10:43084726-43084727
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 129 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:116)

rs_ID	r²[population]
rs10128322	0.85[EUR][1000 genomes]
rs10900240	0.82[EUR][1000 genomes]
rs10900251	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11239619	0.82[EUR][1000 genomes]
rs11239621	0.82[EUR][1000 genomes]
rs11239622	0.82[EUR][1000 genomes]
rs11239644	0.81[EUR][1000 genomes]
rs11239651	0.81[EUR][1000 genomes]
rs11239661	0.83[EUR][1000 genomes]
rs11239662	0.83[EUR][1000 genomes]
rs11239663	0.83[EUR][1000 genomes]
rs11239668	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs11239669	0.86[EUR][1000 genomes]
rs11239670	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs11239671	0.86[EUR][1000 genomes]
rs11239672	0.83[EUR][1000 genomes]
rs11239675	0.86[EUR][1000 genomes]
rs11239682	0.82[EUR][1000 genomes]
rs11239707	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11239708	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11239709	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11528552	0.83[EUR][1000 genomes]
rs12217930	0.86[EUR][1000 genomes]
rs12218051	0.82[EUR][1000 genomes]
rs12219232	0.81[EUR][1000 genomes]
rs12221408	0.85[EUR][1000 genomes]
rs12240565	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs12242735	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12245618	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12256867	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12257762	0.82[EUR][1000 genomes]
rs12257897	0.82[EUR][1000 genomes]
rs12259767	0.83[AFR][1000 genomes];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12261023	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12261168	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12262549	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12263651	0.82[EUR][1000 genomes]
rs12266387	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12268359	0.82[EUR][1000 genomes]
rs12771775	0.82[EUR][1000 genomes]
rs1413393	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs158369	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs158379	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs158386	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1591248	1.00[CEU][hapmap]
rs17157474	0.82[EUR][1000 genomes]
rs1830491	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1831910	0.83[EUR][1000 genomes]
rs1831916	0.81[EUR][1000 genomes]
rs1855448	0.82[EUR][1000 genomes]
rs1855449	0.82[EUR][1000 genomes]
rs2005977	0.86[EUR][1000 genomes]
rs2005978	0.86[EUR][1000 genomes]
rs2016696	0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs209378	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs209379	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs209393	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2297693	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2419368	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2505883	0.85[YRI][hapmap]
rs28404481	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3740324	1.00[CEU][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3740325	0.86[EUR][1000 genomes]
rs3740328	0.82[EUR][1000 genomes]
rs3758512	1.00[CEU][hapmap]
rs3758513	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs41301639	0.82[AMR][1000 genomes]
rs55904273	0.89[EUR][1000 genomes]
rs55914715	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs58635980	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs58877883	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs60433789	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6593371	0.83[EUR][1000 genomes]
rs6593413	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66635049	0.82[EUR][1000 genomes]
rs672073	1.00[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs672077	0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7068874	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs7069467	0.81[EUR][1000 genomes]
rs7069663	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs7071990	0.83[EUR][1000 genomes]
rs7075245	0.83[EUR][1000 genomes]
rs7076534	0.86[EUR][1000 genomes]
rs7078390	0.83[EUR][1000 genomes]
rs7079577	0.82[EUR][1000 genomes]
rs7079581	0.82[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs7082367	0.83[EUR][1000 genomes]
rs7082480	0.81[EUR][1000 genomes]
rs7083254	0.82[EUR][1000 genomes]
rs7085956	0.86[EUR][1000 genomes]
rs7097766	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7098574	0.86[EUR][1000 genomes]
rs7100293	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7100856	0.81[EUR][1000 genomes]
rs73260601	0.86[EUR][1000 genomes]
rs73262610	0.86[EUR][1000 genomes]
rs73262631	0.86[EUR][1000 genomes]
rs73266634	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74137908	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs74137911	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs74137912	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs74137913	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs74137929	0.88[EUR][1000 genomes]
rs7476285	0.81[EUR][1000 genomes]
rs7899665	0.82[EUR][1000 genomes]
rs7900972	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7903632	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7904627	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7906532	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7910969	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7912057	0.82[EUR][1000 genomes]
rs7916307	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7919880	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7920292	0.83[EUR][1000 genomes]
rs7920620	0.86[EUR][1000 genomes]
rs7921658	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817455	chr10:42607635-43151812	Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
2	nsv550670	chr10:42725663-43089965	Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv550672	chr10:42753190-43441729	Bivalent Enhancer Genic enhancers Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
4	nsv895064	chr10:42783481-43243325	Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Weak transcription Active TSS Genic enhancers Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
5	nsv533331	chr10:42830221-43356410	ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
6	nsv1042764	chr10:42846383-43511712	Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
7	nsv1050394	chr10:42890663-43604956	Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
8	nsv540573	chr10:42890663-43604956	Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
9	nsv534548	chr10:42890664-43729688	Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
10	nsv469725	chr10:42965130-43178323	Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
11	nsv482513	chr10:42965130-43178323	Weak transcription ZNF genes & repeats Active TSS Strong transcription Enhancers 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	22 gene(s)	inside rSNPs	diseases
12	esv2758216	chr10:42965131-43510191	Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
13	esv2759746	chr10:42965131-43510191	Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:43076000-43088400	Weak transcription	Brain Cingulate Gyrus	brain
2	chr10:43076800-43087000	Weak transcription	Fetal Heart	heart
3	chr10:43077600-43088000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr10:43077800-43109600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr10:43080600-43086600	Weak transcription	Stomach Mucosa	stomach
6	chr10:43080800-43088000	Weak transcription	Right Ventricle	heart
7	chr10:43081000-43087200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr10:43081000-43087800	Weak transcription	Brain Hippocampus Middle	brain
9	chr10:43081000-43087800	Weak transcription	Psoas Muscle	Psoas
10	chr10:43081400-43085400	Strong transcription	Primary B cells from cord blood	blood
11	chr10:43081400-43087800	Weak transcription	Brain Anterior Caudate	brain
12	chr10:43081800-43086400	Weak transcription	Fetal Muscle Leg	muscle
13	chr10:43081800-43086600	Weak transcription	HepG2	liver
14	chr10:43081800-43086800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr10:43081800-43092000	ZNF genes & repeats	Primary T helper naive cells fromperipheralblood	blood
16	chr10:43082000-43085200	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
17	chr10:43082000-43085600	Strong transcription	Fetal Brain Female	brain
18	chr10:43082000-43092200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr10:43082200-43092600	ZNF genes & repeats	Liver	Liver
20	chr10:43082400-43085000	ZNF genes & repeats	Aorta	Aorta
21	chr10:43082400-43085000	ZNF genes & repeats	Fetal Intestine Small	intestine
22	chr10:43082400-43086000	Strong transcription	Primary T cells fromperipheralblood	blood
23	chr10:43082600-43084800	Strong transcription	Stomach Smooth Muscle	stomach
24	chr10:43082600-43085000	Strong transcription	Skeletal Muscle Male	skeletal muscle
25	chr10:43082600-43086400	Strong transcription	Primary T helper naive cells from peripheral blood	blood
26	chr10:43082600-43091400	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
27	chr10:43082800-43087000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
28	chr10:43083000-43085000	Strong transcription	Fetal Intestine Large	intestine
29	chr10:43083000-43085000	Strong transcription	Left Ventricle	heart
30	chr10:43083000-43085800	Strong transcription	Primary B cells from peripheral blood	blood
31	chr10:43083000-43086400	Weak transcription	Colon Smooth Muscle	Colon
32	chr10:43083000-43086800	ZNF genes & repeats	Primary Natural Killer cells fromperipheralblood	blood
33	chr10:43083000-43087200	Strong transcription	Skeletal Muscle Female	skeletal muscle
34	chr10:43083000-43091400	ZNF genes & repeats	Primary hematopoietic stem cells	blood
35	chr10:43083000-43091400	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
36	chr10:43083000-43091400	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
37	chr10:43083000-43094800	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
38	chr10:43083200-43085600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr10:43083200-43086600	Weak transcription	Small Intestine	intestine
40	chr10:43083200-43091200	ZNF genes & repeats	Primary T killer naive cells fromperipheralblood	blood
41	chr10:43083200-43091400	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum
42	chr10:43083400-43085600	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
43	chr10:43083400-43086200	Strong transcription	Rectal Mucosa Donor 29	rectum
44	chr10:43083400-43086400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr10:43083400-43086600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr10:43083400-43086600	Strong transcription	Duodenum Smooth Muscle	Duodenum
47	chr10:43083400-43091400	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
48	chr10:43083600-43084800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr10:43083600-43085200	Strong transcription	HUES64 Cell Line	embryonic stem cell
50	chr10:43083600-43085200	Weak transcription	Fetal Kidney	kidney

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links