Variant report

Variant	rs10826169
Chromosome Location	chr10:52306898-52306899
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:52305032..52307353-chr10:52341275..52344217,2	K562	blood:
2	chr10:52305141..52307249-chr10:52308669..52310332,3	K562	blood:

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10458673	0.80[AMR][1000 genomes]
rs10508927	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs10763382	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs10763426	0.82[AMR][1000 genomes]
rs10763535	0.94[CEU][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10825882	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs10825904	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs10825934	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10825978	1.00[YRI][hapmap];0.83[AMR][1000 genomes]
rs10826033	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs10826036	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs10826161	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10826166	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10826170	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11005356	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs11005418	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs11005579	0.93[CEU][hapmap];0.90[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs11005614	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs11005621	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs11006054	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11006075	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11006084	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11006114	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11006118	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12217648	0.90[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs12219070	0.80[AMR][1000 genomes]
rs12219692	0.94[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12415817	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12415836	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1884572	0.81[AMR][1000 genomes]
rs1916572	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs2024872	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2144861	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3001883	1.00[YRI][hapmap]
rs34122137	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs34659292	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs36122110	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3739989	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs4519042	0.90[AFR][1000 genomes]
rs4935173	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4935174	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4935728	0.94[AMR][1000 genomes]
rs6481461	1.00[YRI][hapmap]
rs7067552	1.00[YRI][hapmap]
rs7086029	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7089882	1.00[YRI][hapmap]
rs7094143	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7907260	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7920818	0.81[AMR][1000 genomes]
rs927048	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs9919413	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054775	chr10:51595893-52392361	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	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
3	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
4	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
5	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
6	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
7	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:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52280200-52328000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr10:52299000-52310200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr10:52299200-52310200	Weak transcription	Pancreas	Pancrea
4	chr10:52299600-52320600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr10:52300600-52310200	Weak transcription	Placenta	Placenta
6	chr10:52300800-52310800	Weak transcription	Gastric	stomach
7	chr10:52300800-52322800	Weak transcription	Primary B cells from cord blood	blood
8	chr10:52301400-52308600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr10:52301600-52309200	Weak transcription	Ovary	ovary
10	chr10:52301600-52310200	Weak transcription	Left Ventricle	heart
11	chr10:52301600-52327200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr10:52303200-52310200	Weak transcription	Fetal Lung	lung
13	chr10:52303200-52310200	Weak transcription	Stomach Mucosa	stomach
14	chr10:52303200-52312200	Weak transcription	Rectal Smooth Muscle	rectum
15	chr10:52303400-52309400	Weak transcription	Liver	Liver
16	chr10:52303400-52310200	Weak transcription	Spleen	Spleen
17	chr10:52303400-52310800	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr10:52303400-52312200	Weak transcription	Adipose Nuclei	Adipose
19	chr10:52303400-52314000	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr10:52304000-52312000	Weak transcription	Colon Smooth Muscle	Colon
21	chr10:52304400-52312000	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr10:52304800-52309200	Weak transcription	Small Intestine	intestine
23	chr10:52305000-52309200	Weak transcription	Lung	lung
24	chr10:52305000-52309800	Weak transcription	Brain Anterior Caudate	brain
25	chr10:52305000-52310000	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr10:52305000-52310200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr10:52305000-52310200	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr10:52305200-52307800	Weak transcription	Primary B cells from peripheral blood	blood
29	chr10:52305200-52309800	Weak transcription	Brain Angular Gyrus	brain
30	chr10:52305200-52310000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
31	chr10:52305200-52310000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr10:52305200-52310200	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr10:52305200-52310200	Weak transcription	Right Ventricle	heart
34	chr10:52305400-52329600	Weak transcription	Primary T cells fromperipheralblood	blood
35	chr10:52305600-52309600	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr10:52305600-52309600	Weak transcription	Brain Hippocampus Middle	brain
37	chr10:52305800-52309600	Weak transcription	HUES64 Cell Line	embryonic stem cell
38	chr10:52305800-52309600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
39	chr10:52305800-52309600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
40	chr10:52305800-52310400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr10:52306000-52307400	Enhancers	K562	blood
42	chr10:52306000-52307600	Weak transcription	Primary T cells from cord blood	blood
43	chr10:52306000-52308800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
44	chr10:52306000-52309200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr10:52306000-52309200	Weak transcription	Fetal Heart	heart
46	chr10:52306000-52309200	Weak transcription	Fetal Intestine Large	intestine
47	chr10:52306000-52309600	Weak transcription	Brain Cingulate Gyrus	brain
48	chr10:52306000-52309600	Weak transcription	Duodenum Mucosa	Duodenum
49	chr10:52306000-52310000	Weak transcription	Psoas Muscle	Psoas
50	chr10:52306000-52312600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links