Variant report

Variant	rs12902099
Chromosome Location	chr15:57568789-57568790
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 104 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:100)

rs_ID	r²[population]
rs1037956	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1037958	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10518899	0.84[EUR][1000 genomes]
rs11071309	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11629653	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11630910	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11631084	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11632069	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11633061	0.82[EUR][1000 genomes]
rs11634352	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11635440	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11636201	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11636340	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11636348	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11636919	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11637955	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11856055	0.81[EUR][1000 genomes]
rs11856073	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11857507	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11857722	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11858783	0.83[ASN][1000 genomes]
rs12050751	0.83[EUR][1000 genomes]
rs12050758	0.83[EUR][1000 genomes]
rs12898356	0.82[EUR][1000 genomes]
rs12899036	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12899588	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12901671	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12902170	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12902581	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12903115	0.84[EUR][1000 genomes]
rs12903151	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12903221	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12904189	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12904321	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12904501	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12904561	0.81[ASN][1000 genomes]
rs12904602	0.81[EUR][1000 genomes]
rs12904933	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12906042	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12906335	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12906566	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12908278	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12908760	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12909016	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12909696	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12910109	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12910556	0.81[EUR][1000 genomes]
rs12910832	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12911256	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12911297	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12911518	0.85[EUR][1000 genomes]
rs12912210	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12912353	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12912392	0.80[EUR][1000 genomes]
rs12912868	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12914425	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12914481	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12915489	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12916478	0.85[EUR][1000 genomes]
rs12917093	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1462156	0.85[EUR][1000 genomes]
rs1545728	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17239431	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17239508	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1814585	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1867641	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2278685	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2290938	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2414491	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2414492	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2414497	0.81[EUR][1000 genomes]
rs2431023	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2441925	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2593235	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2593237	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2593238	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2733341	0.81[ASN][1000 genomes]
rs3794613	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4238321	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4238322	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4303429	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4353440	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4369592	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4447362	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4774250	0.82[EUR][1000 genomes]
rs4774251	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4774252	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4774913	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4774918	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4774919	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs5014892	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61996955	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61996957	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62022237	0.81[EUR][1000 genomes]
rs7161965	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs745652	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs898901	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs935326	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs960946	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs978274	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[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	nsv904251	chr15:57241970-57575916	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv833021	chr15:57495413-57751366	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
4	nsv526342	chr15:57565859-57597280	Strong transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57520400-57576000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr15:57522800-57585000	Strong transcription	Fetal Thymus	thymus
3	chr15:57526600-57574200	Weak transcription	Hela-S3	cervix
4	chr15:57533600-57568800	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr15:57536800-57574200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr15:57537800-57598200	Weak transcription	Colonic Mucosa	Colon
7	chr15:57539400-57574800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr15:57544600-57574800	Weak transcription	Fetal Brain Male	brain
9	chr15:57546000-57580600	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr15:57548200-57578000	Weak transcription	Fetal Heart	heart
11	chr15:57552200-57573200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr15:57552200-57588600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr15:57552400-57578600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr15:57553200-57585000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr15:57554200-57568800	Strong transcription	Primary T cells from cord blood	blood
16	chr15:57556200-57580600	Weak transcription	Stomach Mucosa	stomach
17	chr15:57557000-57584600	Weak transcription	Colon Smooth Muscle	Colon
18	chr15:57557600-57578000	Weak transcription	Pancreas	Pancrea
19	chr15:57557600-57588600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr15:57558200-57573600	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr15:57562600-57569400	Strong transcription	Monocytes-CD14+_RO01746	blood
22	chr15:57562600-57575600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr15:57562600-57578000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr15:57562600-57584200	Strong transcription	Fetal Muscle Trunk	muscle
25	chr15:57562600-57584600	Strong transcription	Fetal Muscle Leg	muscle
26	chr15:57563200-57572000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr15:57563400-57569600	Strong transcription	Duodenum Mucosa	Duodenum
28	chr15:57564000-57582400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr15:57564000-57583600	Strong transcription	Dnd41	blood
30	chr15:57564200-57568800	Strong transcription	K562	blood
31	chr15:57564400-57568800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr15:57564400-57568800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
33	chr15:57564400-57569400	Strong transcription	Primary T helper cells PMA-I stimulated	--
34	chr15:57564600-57568800	Strong transcription	Liver	Liver
35	chr15:57564800-57569200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
36	chr15:57564800-57570400	Strong transcription	Stomach Smooth Muscle	stomach
37	chr15:57564800-57575600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr15:57564800-57584600	Strong transcription	Cortex derived primary cultured neurospheres	brain
39	chr15:57565000-57570200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
40	chr15:57565000-57570800	Strong transcription	Fetal Stomach	stomach
41	chr15:57565000-57576400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr15:57565000-57583400	Strong transcription	Thymus	Thymus
43	chr15:57565200-57568800	Strong transcription	HSMM	muscle
44	chr15:57565200-57569000	Strong transcription	Placenta	Placenta
45	chr15:57565200-57569400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr15:57565200-57569400	Strong transcription	Adipose Nuclei	Adipose
47	chr15:57565200-57569400	Strong transcription	Sigmoid Colon	Sigmoid Colon
48	chr15:57565200-57570800	Strong transcription	Fetal Intestine Small	intestine
49	chr15:57565200-57574600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
50	chr15:57565200-57575200	Strong transcription	Fetal Lung	lung

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