Variant report

Variant	rs11636919
Chromosome Location	chr15:57465955-57465956
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 103 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1037956	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1037958	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10518899	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11071309	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11631084	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11632069	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11633061	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11634352	0.81[ASN][1000 genomes]
rs11635440	0.80[ASN][1000 genomes]
rs11636201	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11636340	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11636348	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11637955	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11853331	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11856055	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11856073	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11857507	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11857722	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11858783	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11858880	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12050751	0.94[EUR][1000 genomes]
rs12050758	0.94[EUR][1000 genomes]
rs12898356	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12899036	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12899588	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12901671	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12902099	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12902170	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12902581	0.82[ASN][1000 genomes]
rs12903115	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12903151	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12903221	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12903578	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12904189	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12904321	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12904501	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12904561	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12904602	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12904933	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12906042	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12906335	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12906566	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12908760	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12909016	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12910094	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12910556	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12910832	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12911256	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12911518	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12912210	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12912353	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12912392	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12912868	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12914182	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12914410	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12914425	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12914481	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12915473	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12915489	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12916478	0.93[EUR][1000 genomes]
rs12917093	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1462156	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1545728	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17239431	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17239508	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1814585	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1867641	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2278685	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2290938	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2414491	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2414492	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2414494	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2414497	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2431023	0.81[ASN][1000 genomes]
rs2441925	0.80[ASN][1000 genomes]
rs2593235	0.82[ASN][1000 genomes]
rs2593237	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2593238	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2615252	0.88[ASN][1000 genomes]
rs2703596	0.84[EUR][1000 genomes]
rs2733341	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3794613	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4238321	0.82[ASN][1000 genomes]
rs4238322	0.81[ASN][1000 genomes]
rs4303429	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4353440	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4369592	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4447362	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4774250	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4774910	0.81[AFR][1000 genomes]
rs4774913	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs5014892	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61996955	0.81[ASN][1000 genomes]
rs62022237	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7161965	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs745652	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs898901	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs935326	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs960946	0.83[ASN][1000 genomes]
rs978274	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042486	chr15:57094598-57505992	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	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
3	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11636919	TCF12	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57439400-57491600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr15:57444400-57485600	Weak transcription	Placenta	Placenta
3	chr15:57444400-57507400	Weak transcription	K562	blood
4	chr15:57444600-57490200	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr15:57444800-57484200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr15:57444800-57484200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr15:57445200-57466000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr15:57445400-57478400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr15:57446000-57468400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr15:57447000-57484600	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr15:57447800-57466000	Weak transcription	Pancreas	Pancrea
12	chr15:57448000-57483800	Weak transcription	Lung	lung
13	chr15:57450800-57469000	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr15:57450800-57491000	Weak transcription	Left Ventricle	heart
15	chr15:57451000-57477400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr15:57451000-57487800	Weak transcription	Psoas Muscle	Psoas
17	chr15:57451000-57490800	Weak transcription	NHEK	skin
18	chr15:57451200-57470200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr15:57451200-57475000	Weak transcription	Colon Smooth Muscle	Colon
20	chr15:57451200-57475400	Weak transcription	Adipose Nuclei	Adipose
21	chr15:57451200-57478600	Weak transcription	HMEC	breast
22	chr15:57451200-57484200	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr15:57451200-57484200	Weak transcription	Esophagus	oesophagus
24	chr15:57451200-57490400	Weak transcription	Ovary	ovary
25	chr15:57451600-57491200	Weak transcription	Rectal Smooth Muscle	rectum
26	chr15:57451800-57478400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr15:57452200-57481600	Weak transcription	Fetal Heart	heart
28	chr15:57452400-57475400	Weak transcription	Fetal Lung	lung
29	chr15:57452400-57490400	Weak transcription	Fetal Brain Female	brain
30	chr15:57452800-57470800	Weak transcription	Brain Anterior Caudate	brain
31	chr15:57453800-57485400	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr15:57453800-57524600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr15:57457200-57499400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr15:57457400-57478400	Weak transcription	Fetal Muscle Leg	muscle
35	chr15:57458200-57505200	Strong transcription	Fetal Thymus	thymus
36	chr15:57458600-57468600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr15:57458800-57475000	Weak transcription	Osteobl	bone
38	chr15:57458800-57475600	Weak transcription	HUVEC	blood vessel
39	chr15:57459200-57488600	Weak transcription	HUES6 Cell Line	embryonic stem cell
40	chr15:57459200-57492600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
41	chr15:57459400-57468600	Weak transcription	HSMM	muscle
42	chr15:57459600-57469000	Weak transcription	Primary hematopoietic stem cells	blood
43	chr15:57459800-57475600	Weak transcription	Fetal Intestine Large	intestine
44	chr15:57459800-57476200	Weak transcription	Rectal Mucosa Donor 29	rectum
45	chr15:57459800-57476600	Weak transcription	Fetal Stomach	stomach
46	chr15:57459800-57477400	Weak transcription	Monocytes-CD14+_RO01746	blood
47	chr15:57459800-57477800	Weak transcription	Primary monocytes fromperipheralblood	blood
48	chr15:57459800-57478400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr15:57459800-57490200	Weak transcription	HSMMtube	muscle
50	chr15:57460000-57484200	Weak transcription	Primary T helper cells fromperipheralblood	blood

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