Variant report

Variant	rs12900237
Chromosome Location	chr15:44330810-44330811
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 132 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:125)

rs_ID	r²[population]
rs10459588	1.00[CEU][hapmap]
rs10518994	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10851415	1.00[CEU][hapmap]
rs10851416	1.00[CEU][hapmap]
rs11070419	1.00[CEU][hapmap]
rs1115870	1.00[CEU][hapmap]
rs1160066	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.85[ASN][1000 genomes]
rs11631340	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11635948	1.00[CEU][hapmap]
rs11854312	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs11857696	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.91[ASN][1000 genomes]
rs12324261	1.00[CEU][hapmap]
rs12437804	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12591537	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12900880	1.00[CEU][hapmap]
rs13379739	1.00[JPT][hapmap]
rs1365457	0.86[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs1426657	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.85[ASN][1000 genomes]
rs1426658	1.00[CEU][hapmap]
rs16959032	0.91[JPT][hapmap]
rs16959345	0.90[JPT][hapmap]
rs1808509	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.83[ASN][1000 genomes]
rs1820482	1.00[CEU][hapmap]
rs1820485	0.85[ASN][1000 genomes]
rs1834641	1.00[CEU][hapmap]
rs1863600	0.87[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs2015277	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.85[ASN][1000 genomes]
rs2019074	0.83[ASN][1000 genomes]
rs2042738	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.85[ASN][1000 genomes]
rs2042739	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.85[ASN][1000 genomes]
rs2042741	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.91[ASN][1000 genomes]
rs2059628	0.85[ASN][1000 genomes]
rs2114420	0.88[CHB][hapmap];0.91[JPT][hapmap];0.94[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2114421	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2114422	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.85[ASN][1000 genomes]
rs2162366	1.00[CEU][hapmap]
rs2217108	1.00[CEU][hapmap]
rs2412845	1.00[CEU][hapmap]
rs2412846	1.00[CEU][hapmap]
rs2412849	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs2412850	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs2412851	1.00[CEU][hapmap]
rs2412852	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2412854	1.00[CEU][hapmap]
rs2412855	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2555366	0.85[ASN][1000 genomes]
rs2555368	0.82[ASN][1000 genomes]
rs2555375	1.00[CEU][hapmap]
rs2555376	1.00[CEU][hapmap]
rs2555380	1.00[CEU][hapmap]
rs2555382	0.83[ASN][1000 genomes]
rs2555384	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.85[ASN][1000 genomes]
rs2555385	0.85[ASN][1000 genomes]
rs2555387	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs2555389	1.00[CEU][hapmap]
rs2615269	0.83[ASN][1000 genomes]
rs2615271	0.84[ASN][1000 genomes]
rs2615278	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs2615280	0.85[ASN][1000 genomes]
rs2615281	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs2615285	1.00[CEU][hapmap];0.85[ASN][1000 genomes]
rs2615286	0.85[ASN][1000 genomes]
rs2615287	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.85[ASN][1000 genomes]
rs2615288	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.85[ASN][1000 genomes]
rs2615290	0.85[ASN][1000 genomes]
rs2615291	0.85[ASN][1000 genomes]
rs2615292	0.85[ASN][1000 genomes]
rs2615293	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap]
rs2615294	1.00[CEU][hapmap]
rs2615295	1.00[CEU][hapmap];0.81[YRI][hapmap];0.85[ASN][1000 genomes]
rs2615297	1.00[CEU][hapmap]
rs2615299	1.00[CEU][hapmap]
rs2623019	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2696094	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs2696098	1.00[CEU][hapmap]
rs2706472	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.85[ASN][1000 genomes]
rs2706473	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.85[ASN][1000 genomes]
rs2706474	0.85[ASN][1000 genomes]
rs2706481	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2706486	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.85[ASN][1000 genomes]
rs2706487	1.00[CEU][hapmap]
rs2706488	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.91[ASN][1000 genomes]
rs2706490	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.85[ASN][1000 genomes]
rs2706491	0.83[ASN][1000 genomes]
rs2706492	0.85[ASN][1000 genomes]
rs2706495	1.00[CEU][hapmap]
rs2733203	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.85[ASN][1000 genomes]
rs2733204	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2733208	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.83[ASN][1000 genomes]
rs2733209	1.00[CEU][hapmap]
rs2733210	1.00[JPT][hapmap]
rs2733213	1.00[CEU][hapmap]
rs2733221	1.00[CEU][hapmap]
rs2733226	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2899103	1.00[CEU][hapmap]
rs2929281	1.00[CEU][hapmap]
rs2930528	1.00[CEU][hapmap]
rs2957581	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.85[ASN][1000 genomes]
rs2957583	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4419034	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4597286	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4923976	1.00[CEU][hapmap]
rs4924727	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4924728	1.00[CEU][hapmap]
rs4924729	1.00[CEU][hapmap]
rs4924734	1.00[CEU][hapmap]
rs4924737	1.00[CEU][hapmap]
rs6493092	1.00[CEU][hapmap]
rs6493093	1.00[CEU][hapmap]
rs6493094	1.00[CEU][hapmap]
rs7166715	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.85[ASN][1000 genomes]
rs7168522	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs8030309	1.00[JPT][hapmap]
rs8033233	1.00[CEU][hapmap]
rs8035212	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs8035946	0.91[JPT][hapmap]
rs8036541	1.00[CEU][hapmap]
rs8037596	1.00[CEU][hapmap]
rs8038096	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.91[ASN][1000 genomes]
rs8039970	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs8041487	1.00[CEU][hapmap]
rs8042697	0.85[ASN][1000 genomes]
rs890465	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs958485	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9920249	1.00[CEU][hapmap]

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	nsv431387	chr15:43929378-44862930	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	158 gene(s)	inside rSNPs	diseases
2	nsv931051	chr15:43988761-44833518	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	154 gene(s)	inside rSNPs	diseases
3	nsv1044435	chr15:44176103-44507403	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
4	nsv1052511	chr15:44266441-44719023	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
5	nsv542371	chr15:44266441-44719023	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
6	nsv1045362	chr15:44280481-44414443	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
7	nsv832989	chr15:44306469-44461710	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:44327800-44331000	Weak transcription	Fetal Heart	heart
2	chr15:44328400-44331000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr15:44328400-44331000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr15:44328400-44331000	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr15:44328400-44331000	Weak transcription	HSMM	muscle
6	chr15:44328600-44331000	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr15:44328600-44331200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr15:44328800-44331000	Weak transcription	Brain Hippocampus Middle	brain
9	chr15:44328800-44331000	Weak transcription	NHLF	lung
10	chr15:44328800-44331000	Weak transcription	Osteobl	bone
11	chr15:44329000-44337200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr15:44330800-44331000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr15:44330800-44331000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr15:44330800-44331000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr15:44330800-44331000	Enhancers	Brain Substantia Nigra	brain
16	chr15:44330800-44331000	Active TSS	Hela-S3	cervix
17	chr15:44330800-44331000	Enhancers	NH-A	brain
18	chr15:44330800-44331200	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
19	chr15:44330800-44331200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr15:44330800-44331200	Flanking Active TSS	HSMMtube	muscle
21	chr15:44330800-44331400	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr15:44330800-44331400	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
23	chr15:44330800-44331400	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
24	chr15:44330800-44331400	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr15:44330800-44331600	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr15:44330800-44331600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr15:44330800-44331600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr15:44330800-44331600	Enhancers	Brain Anterior Caudate	brain
29	chr15:44330800-44331600	Enhancers	Brain Cingulate Gyrus	brain
30	chr15:44330800-44331600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
31	chr15:44330800-44331800	Enhancers	H1 Cell Line	embryonic stem cell
32	chr15:44330800-44331800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr15:44330800-44331800	Enhancers	Brain Angular Gyrus	brain
34	chr15:44330800-44331800	Enhancers	Fetal Adrenal Gland	Adrenal Gland

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