Variant report

Variant	rs12910094
Chromosome Location	chr15:57432559-57432560
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:57431669..57434658-chr15:57445246..57447900,2	K562	blood:
2	chr15:57428236..57433536-chr15:57434011..57440588,9	K562	blood:

Extended variants
information (count: 160 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:157)

rs_ID	r²[population]
rs1037956	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[EUR][1000 genomes]
rs1037958	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs10518894	0.85[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10518895	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AFR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10518899	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs11071305	0.91[EUR][1000 genomes]
rs11071309	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes]
rs11630195	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes]
rs11631228	0.84[AMR][1000 genomes]
rs11631541	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes]
rs11632069	0.86[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11633061	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11635440	0.89[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap]
rs11635645	0.86[ASN][1000 genomes]
rs11636100	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11636201	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11636348	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11636919	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11637955	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[EUR][1000 genomes]
rs11852340	0.85[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11853331	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11855648	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11857507	0.89[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap]
rs11858471	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs11858783	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12050751	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs12050758	0.84[EUR][1000 genomes]
rs12898327	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12898356	0.81[EUR][1000 genomes]
rs12898844	0.82[EUR][1000 genomes]
rs12899036	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12899187	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes]
rs12899588	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12899904	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12899915	1.00[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap];0.86[AMR][1000 genomes]
rs12900038	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12900589	0.89[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap]
rs12900874	0.91[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap]
rs12900986	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes]
rs12901671	0.80[EUR][1000 genomes]
rs12901780	0.84[AMR][1000 genomes]
rs12902170	0.80[EUR][1000 genomes]
rs12903115	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12903578	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12904321	0.84[EUR][1000 genomes]
rs12904501	0.84[EUR][1000 genomes]
rs12904602	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs12904634	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs12904933	0.89[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap]
rs12905900	0.92[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes]
rs12906042	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12906335	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12906566	0.80[EUR][1000 genomes]
rs12906873	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes]
rs12906936	0.86[AMR][1000 genomes]
rs12908760	0.84[EUR][1000 genomes]
rs12909402	0.86[ASN][1000 genomes]
rs12909811	0.84[AMR][1000 genomes]
rs12910170	0.86[ASN][1000 genomes]
rs12910556	0.82[EUR][1000 genomes]
rs12910832	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12911518	0.83[EUR][1000 genomes]
rs12912007	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12912210	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12912353	0.80[EUR][1000 genomes]
rs12912392	0.81[EUR][1000 genomes]
rs12912868	0.93[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap]
rs12914182	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12914410	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12914425	0.96[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12914481	0.85[EUR][1000 genomes]
rs12915473	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12915489	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs12916237	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.84[AMR][1000 genomes]
rs12916478	0.83[EUR][1000 genomes]
rs12916958	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes]
rs12917093	0.80[EUR][1000 genomes]
rs12917247	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13313455	0.85[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs1430823	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes]
rs1462156	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs1545728	0.95[JPT][hapmap]
rs1628067	0.85[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap]
rs17239040	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.86[AMR][1000 genomes]
rs17239431	0.81[EUR][1000 genomes]
rs17239508	0.84[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs17819700	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs1814585	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs1820995	0.85[CHB][hapmap];0.91[JPT][hapmap]
rs1867641	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs2111891	0.86[AMR][1000 genomes]
rs2116065	0.84[AMR][1000 genomes]
rs2116066	0.84[AMR][1000 genomes]
rs213149	0.89[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap]
rs2169465	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2169466	0.82[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs2290938	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[EUR][1000 genomes]
rs2414490	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs2414491	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2414492	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs2414494	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2414497	0.82[EUR][1000 genomes]
rs2464429	0.85[CHB][hapmap];0.91[JPT][hapmap]
rs2464430	0.85[CHB][hapmap];0.91[JPT][hapmap]
rs2470079	0.85[CHB][hapmap];0.91[JPT][hapmap]
rs2470082	0.80[CHB][hapmap];0.95[JPT][hapmap]
rs2583108	0.82[AMR][1000 genomes]
rs2585082	1.00[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap]
rs2585087	0.82[CEU][hapmap];0.85[CHB][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes]
rs2585088	0.81[CHB][hapmap];0.91[JPT][hapmap]
rs2585102	0.82[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes]
rs2585112	0.84[CHB][hapmap];0.90[JPT][hapmap]
rs2593237	0.84[EUR][1000 genomes]
rs2593238	0.84[EUR][1000 genomes]
rs2615231	0.85[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs2703576	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs2703580	0.95[JPT][hapmap]
rs2733170	0.80[CHB][hapmap];0.95[JPT][hapmap]
rs2733171	0.82[CEU][hapmap];0.85[CHB][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes]
rs2733174	0.82[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes]
rs2733176	0.84[AMR][1000 genomes]
rs2733188	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs2733307	0.86[ASN][1000 genomes]
rs2733332	0.82[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs28648502	0.81[ASN][1000 genomes]
rs2920267	0.84[CHB][hapmap];0.95[JPT][hapmap]
rs2927189	0.80[ASN][1000 genomes]
rs2951899	0.85[JPT][hapmap]
rs2951901	0.81[CHB][hapmap];0.91[JPT][hapmap]
rs2951903	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs2951904	0.84[CHB][hapmap];0.90[JPT][hapmap]
rs2962990	0.85[CHB][hapmap];0.95[JPT][hapmap]
rs2962991	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs2962992	0.90[JPT][hapmap]
rs2962993	0.82[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap];0.80[AMR][1000 genomes]
rs3095821	0.88[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs34262415	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes]
rs35646942	0.84[AMR][1000 genomes]
rs3794613	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs3803454	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes]
rs4238321	0.89[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs4353440	0.92[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap]
rs4774250	0.89[CEU][hapmap];0.94[CHB][hapmap];0.81[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4774902	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs4774910	0.96[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4774913	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62022986	0.84[AMR][1000 genomes]
rs62022988	0.87[AMR][1000 genomes]
rs6493901	0.96[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7161965	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes]
rs7175436	0.80[CHB][hapmap];0.90[JPT][hapmap]
rs745652	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7496293	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs8037901	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs935326	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs967514	0.85[CHB][hapmap];0.90[JPT][hapmap];0.80[ASN][1000 genomes]
rs978274	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][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
rs12910094	TCF12	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57387600-57442400	Weak transcription	Fetal Intestine Large	intestine
2	chr15:57410600-57440800	Weak transcription	Ovary	ovary
3	chr15:57415000-57438800	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr15:57415600-57438800	Weak transcription	Monocytes-CD14+_RO01746	blood
5	chr15:57416000-57438800	Weak transcription	Primary B cells from cord blood	blood
6	chr15:57419600-57439000	Weak transcription	Fetal Intestine Small	intestine
7	chr15:57421800-57436600	Weak transcription	Primary neutrophils fromperipheralblood	blood
8	chr15:57425800-57434800	Strong transcription	Fetal Thymus	thymus
9	chr15:57425800-57438800	Weak transcription	HSMM	muscle
10	chr15:57425800-57440800	Weak transcription	Thymus	Thymus
11	chr15:57425800-57442200	Weak transcription	Right Ventricle	heart
12	chr15:57426800-57436200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr15:57426800-57438400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr15:57427200-57440000	Weak transcription	Fetal Stomach	stomach
15	chr15:57427400-57432600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr15:57427400-57436200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr15:57427400-57439000	Weak transcription	A549	lung
18	chr15:57427400-57442600	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr15:57427600-57440600	Weak transcription	Dnd41	blood
20	chr15:57428200-57432600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr15:57428200-57437800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr15:57428400-57434600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr15:57428400-57438800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr15:57428400-57442200	Weak transcription	Primary T cells from cord blood	blood
25	chr15:57428600-57435600	Weak transcription	Osteobl	bone
26	chr15:57428600-57436200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr15:57428600-57438000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr15:57428600-57438600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr15:57428600-57438800	Weak transcription	Liver	Liver
30	chr15:57428600-57438800	Weak transcription	NHDF-Ad	bronchial
31	chr15:57428600-57438800	Weak transcription	NHLF	lung
32	chr15:57428600-57444000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr15:57428800-57436200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr15:57428800-57438800	Weak transcription	Pancreatic Islets	Pancreatic Islet
35	chr15:57429000-57437800	Weak transcription	Brain Germinal Matrix	brain
36	chr15:57429200-57438800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
37	chr15:57430400-57433600	Enhancers	Fetal Heart	heart
38	chr15:57430600-57435400	Weak transcription	K562	blood
39	chr15:57430600-57435600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr15:57430600-57438800	Weak transcription	NH-A	brain
41	chr15:57430800-57435800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr15:57430800-57436200	Weak transcription	Brain Anterior Caudate	brain
43	chr15:57431000-57432600	Weak transcription	Brain Hippocampus Middle	brain
44	chr15:57431000-57434800	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr15:57431000-57435200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr15:57431000-57435400	Weak transcription	Cortex derived primary cultured neurospheres	brain
47	chr15:57431000-57436200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
48	chr15:57431000-57438000	Weak transcription	Brain Angular Gyrus	brain
49	chr15:57431000-57438600	Weak transcription	Colon Smooth Muscle	Colon
50	chr15:57431000-57438600	Weak transcription	HUVEC	blood vessel

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