Variant report

Variant	rs28802286
Chromosome Location	chr15:55685165-55685166
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10152780	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs1051099	0.82[ASN][1000 genomes]
rs11071183	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11629771	0.87[AMR][1000 genomes]
rs11629841	0.85[AMR][1000 genomes]
rs11630535	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11635144	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11854672	0.83[AMR][1000 genomes]
rs11854716	0.86[AMR][1000 genomes]
rs11854851	0.86[AMR][1000 genomes]
rs11855391	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11857139	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11857862	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11858302	0.85[AMR][1000 genomes]
rs12372992	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17238297	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17819096	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17819108	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2264298	0.93[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2927575	0.97[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34372408	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35591827	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4380011	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55670124	0.88[AMR][1000 genomes]
rs56070549	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs56132182	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56842095	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57411546	0.82[AMR][1000 genomes]
rs57897435	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59528426	0.83[AMR][1000 genomes]
rs60168254	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61008792	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs627597	0.81[AMR][1000 genomes]
rs6493787	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs657217	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs66519356	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs685498	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7167170	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7174102	0.95[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs7176557	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs7183834	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7183896	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs72742295	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72744104	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72744105	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72744169	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72744175	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs72744187	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs72744192	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7495414	0.83[ASN][1000 genomes]
rs8037376	0.91[AMR][1000 genomes]
rs8038102	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs8039657	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8042509	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8043115	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9806268	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917323	chr15:55290499-56041334	Genic enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv1043789	chr15:55400872-56092454	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv1051046	chr15:55529291-55821973	Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
4	nsv1036173	chr15:55547689-55812194	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
5	nsv542391	chr15:55547689-55812194	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
6	nsv569523	chr15:55555602-55836704	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
7	nsv1040917	chr15:55562940-55943942	Flanking Active TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
8	nsv531054	chr15:55571230-55914205	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
9	nsv904243	chr15:55627528-55734158	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
10	nsv948522	chr15:55639867-56032099	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
11	nsv520799	chr15:55645661-55760522	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
12	nsv1041635	chr15:55658171-55943942	Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:55611800-55699400	Weak transcription	Colonic Mucosa	Colon
2	chr15:55630000-55695000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr15:55637000-55699600	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr15:55647800-55695400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr15:55649800-55695800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr15:55667600-55687000	Weak transcription	Pancreas	Pancrea
7	chr15:55668200-55699800	Weak transcription	Spleen	Spleen
8	chr15:55669400-55687200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr15:55669400-55690400	Weak transcription	Fetal Heart	heart
10	chr15:55670200-55695000	Weak transcription	Colon Smooth Muscle	Colon
11	chr15:55670800-55687000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr15:55671800-55690400	Weak transcription	Brain Angular Gyrus	brain
13	chr15:55671800-55695800	Weak transcription	HSMMtube	muscle
14	chr15:55672000-55687000	Weak transcription	Small Intestine	intestine
15	chr15:55672200-55696000	Weak transcription	Brain Substantia Nigra	brain
16	chr15:55676000-55687000	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr15:55676000-55695000	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr15:55676000-55699400	Weak transcription	Brain Cingulate Gyrus	brain
19	chr15:55676200-55686600	Weak transcription	K562	blood
20	chr15:55676200-55695200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr15:55676200-55695800	Weak transcription	Brain Hippocampus Middle	brain
22	chr15:55676400-55697200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr15:55676400-55699400	Weak transcription	Right Ventricle	heart
24	chr15:55676800-55686200	Weak transcription	Left Ventricle	heart
25	chr15:55676800-55686400	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr15:55676800-55688600	Weak transcription	Aorta	Aorta
27	chr15:55676800-55695800	Weak transcription	Rectal Mucosa Donor 31	rectum
28	chr15:55676800-55697600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr15:55677000-55686400	Weak transcription	Fetal Muscle Trunk	muscle
30	chr15:55677000-55695600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr15:55677200-55685400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
32	chr15:55678200-55699400	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr15:55679400-55696800	Weak transcription	Primary T cells fromperipheralblood	blood
34	chr15:55679600-55689600	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr15:55679600-55694400	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr15:55679600-55695000	Weak transcription	Fetal Intestine Large	intestine
37	chr15:55679800-55687000	Weak transcription	Fetal Brain Female	brain
38	chr15:55681000-55686600	Weak transcription	Duodenum Smooth Muscle	Duodenum
39	chr15:55681000-55688600	Weak transcription	Adipose Nuclei	Adipose
40	chr15:55681000-55695000	Weak transcription	Primary B cells from peripheral blood	blood
41	chr15:55681000-55695800	Weak transcription	Rectal Smooth Muscle	rectum
42	chr15:55681000-55697400	Weak transcription	Gastric	stomach
43	chr15:55681000-55699200	Weak transcription	Lung	lung
44	chr15:55681000-55699600	Weak transcription	Fetal Stomach	stomach
45	chr15:55681200-55686000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr15:55681200-55686600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr15:55681200-55689800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
48	chr15:55681200-55693800	Weak transcription	Primary T helper cells fromperipheralblood	blood
49	chr15:55681200-55694000	Weak transcription	Liver	Liver
50	chr15:55681200-55694200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links