Variant report

Variant	rs11006440
Chromosome Location	chr10:52413526-52413527
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10826243	0.81[ASN][1000 genomes]
rs10826273	0.95[CEU][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11006328	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11006358	0.95[CEU][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11006369	0.95[CEU][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11006427	0.95[CEU][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11006433	0.95[CEU][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11006434	0.95[CEU][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11006437	0.95[CEU][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11006441	0.95[CEU][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11006452	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11006469	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11006470	0.95[CEU][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11006473	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11006474	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11006476	0.95[CEU][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11006477	0.95[CEU][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11006479	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11006493	0.83[ASN][1000 genomes]
rs12358192	0.81[ASN][1000 genomes]
rs12358348	0.95[CEU][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12358866	0.81[ASN][1000 genomes]
rs12360512	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17581567	0.95[CEU][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17582633	0.95[CEU][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55763387	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55953936	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55969688	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56029434	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56044934	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56306926	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs57002092	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs60177889	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7904306	0.95[CEU][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051087	chr10:51886486-52447295	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	nsv916214	chr10:51886486-52458983	Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
3	nsv918212	chr10:51886486-52465482	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv817412	chr10:51911034-52432990	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
5	nsv469522	chr10:52276564-52447589	Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
6	nsv482564	chr10:52276564-52447589	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52410000-52413800	Enhancers	Fetal Intestine Large	intestine
2	chr10:52410400-52414800	Enhancers	K562	blood
3	chr10:52411000-52413600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr10:52411200-52419200	Weak transcription	Fetal Intestine Small	intestine
5	chr10:52411800-52414000	Enhancers	HUVEC	blood vessel
6	chr10:52412200-52414200	Enhancers	Primary B cells from peripheral blood	blood
7	chr10:52412200-52414800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
8	chr10:52412600-52413600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
9	chr10:52412800-52413600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
10	chr10:52412800-52413800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr10:52412800-52413800	Enhancers	Primary T helper naive cells from peripheral blood	blood
12	chr10:52412800-52413800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
13	chr10:52412800-52413800	Enhancers	Pancreatic Islets	Pancreatic Islet
14	chr10:52412800-52414000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr10:52412800-52414000	Enhancers	Primary T cells from cord blood	blood
16	chr10:52412800-52414000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
17	chr10:52412800-52414000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
18	chr10:52412800-52414000	Enhancers	Primary T helper cells PMA-I stimulated	--
19	chr10:52412800-52414000	Enhancers	Primary T killer memory cells from peripheral blood	blood
20	chr10:52412800-52414200	Enhancers	Adipose Nuclei	Adipose
21	chr10:52412800-52414800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr10:52413000-52413600	Enhancers	Primary neutrophils fromperipheralblood	blood
23	chr10:52413000-52413600	Enhancers	Primary T cells fromperipheralblood	blood
24	chr10:52413000-52413600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
25	chr10:52413000-52413800	Enhancers	Primary T helper cells fromperipheralblood	blood
26	chr10:52413000-52413800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr10:52413000-52413800	Enhancers	Fetal Thymus	thymus
28	chr10:52413000-52414000	Enhancers	Primary monocytes fromperipheralblood	blood
29	chr10:52413200-52413600	Enhancers	Fetal Heart	heart
30	chr10:52413200-52413600	Enhancers	Monocytes-CD14+_RO01746	blood
31	chr10:52413200-52414400	Weak transcription	Liver	Liver
32	chr10:52413200-52414400	Weak transcription	Brain Cingulate Gyrus	brain
33	chr10:52413400-52413600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr10:52413400-52413800	Flanking Active TSS	Primary hematopoietic stem cells	blood
35	chr10:52413400-52414000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr10:52413400-52414000	Enhancers	Primary B cells from cord blood	blood
37	chr10:52413400-52414600	Enhancers	Primary hematopoietic stem cells short term culture	blood
38	chr10:52413400-52414600	Enhancers	GM12878-XiMat	blood

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