Variant report

Variant	rs2623017
Chromosome Location	chr15:44403285-44403286
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 118 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:107)

rs_ID	r²[population]
rs10152607	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10518994	0.83[EUR][1000 genomes]
rs10851415	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10851416	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11070419	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1115870	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1160066	0.91[EUR][1000 genomes]
rs11631340	0.80[EUR][1000 genomes]
rs11632901	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11635948	0.83[EUR][1000 genomes]
rs11638352	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11854312	0.83[EUR][1000 genomes]
rs11857696	0.83[EUR][1000 genomes]
rs12324261	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12437804	0.83[EUR][1000 genomes]
rs12591537	0.83[EUR][1000 genomes]
rs12900880	0.86[EUR][1000 genomes]
rs12913809	1.00[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1365456	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1426658	0.86[EUR][1000 genomes]
rs1808509	0.91[EUR][1000 genomes]
rs1813196	0.91[AFR][1000 genomes]
rs1820482	0.86[EUR][1000 genomes]
rs1820484	0.87[AFR][1000 genomes]
rs1834641	0.87[AFR][1000 genomes]
rs2015277	0.86[EUR][1000 genomes]
rs2019074	0.91[EUR][1000 genomes]
rs2042741	0.88[EUR][1000 genomes]
rs2059626	0.86[EUR][1000 genomes]
rs2059627	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2059628	0.91[EUR][1000 genomes]
rs2114416	0.87[AFR][1000 genomes]
rs2114420	0.83[EUR][1000 genomes]
rs2114421	0.83[EUR][1000 genomes]
rs2162365	0.87[AFR][1000 genomes]
rs2162366	0.87[AFR][1000 genomes]
rs2217108	0.87[AFR][1000 genomes]
rs2412845	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2412846	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2412847	0.86[EUR][1000 genomes]
rs2412848	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2412850	0.83[EUR][1000 genomes]
rs2412851	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2412852	0.83[EUR][1000 genomes]
rs2412853	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2412854	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2412855	0.83[EUR][1000 genomes]
rs2555375	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2555380	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2555385	0.91[EUR][1000 genomes]
rs2555389	0.87[AFR][1000 genomes]
rs2615268	0.84[AFR][1000 genomes]
rs2615272	0.85[AFR][1000 genomes]
rs2615285	0.91[EUR][1000 genomes]
rs2615287	0.91[EUR][1000 genomes]
rs2615288	0.91[EUR][1000 genomes]
rs2615290	0.91[EUR][1000 genomes]
rs2615291	0.89[EUR][1000 genomes]
rs2615292	0.91[EUR][1000 genomes]
rs2615294	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2615295	0.91[EUR][1000 genomes]
rs2615297	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2623019	0.94[EUR][1000 genomes]
rs2706471	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2706473	0.91[EUR][1000 genomes]
rs2706474	0.91[EUR][1000 genomes]
rs2706481	0.94[EUR][1000 genomes]
rs2706487	0.87[AFR][1000 genomes]
rs2706488	0.88[EUR][1000 genomes]
rs2733201	0.88[AFR][1000 genomes]
rs2733203	0.91[EUR][1000 genomes]
rs2733204	0.91[EUR][1000 genomes]
rs2733221	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2733226	0.94[EUR][1000 genomes]
rs28667396	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2899103	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2929281	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2930528	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2957581	0.91[EUR][1000 genomes]
rs2957583	0.83[EUR][1000 genomes]
rs3919618	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4419034	0.83[EUR][1000 genomes]
rs4923969	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4923972	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4924727	0.80[EUR][1000 genomes]
rs4924728	0.86[EUR][1000 genomes]
rs4924729	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4924731	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4924734	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4924735	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4924737	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6493092	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6493093	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6493094	0.86[EUR][1000 genomes]
rs7166715	0.91[EUR][1000 genomes]
rs7176955	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8033233	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8035212	0.83[EUR][1000 genomes]
rs8036541	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8037441	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8037596	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8038096	0.83[EUR][1000 genomes]
rs8041487	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8041650	0.82[AMR][1000 genomes]
rs890465	0.83[EUR][1000 genomes]
rs958485	0.83[EUR][1000 genomes]
rs9920249	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 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
8	esv3351630	chr15:44334624-44547841	Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	nsv904173	chr15:44391572-44522214	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	nsv904174	chr15:44391572-44538660	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	nsv569298	chr15:44401266-44513090	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:44395000-44408000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr15:44396000-44408400	Weak transcription	HSMMtube	muscle
3	chr15:44396200-44413000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr15:44396400-44409800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr15:44399600-44406400	Weak transcription	Brain Anterior Caudate	brain
6	chr15:44400200-44405200	Weak transcription	Fetal Heart	heart
7	chr15:44400200-44407800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr15:44402400-44404000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr15:44402400-44404000	Enhancers	Brain Angular Gyrus	brain
10	chr15:44402400-44404000	Enhancers	Brain Cingulate Gyrus	brain
11	chr15:44402400-44404000	Enhancers	Brain Hippocampus Middle	brain
12	chr15:44402600-44404000	Enhancers	Brain Inferior Temporal Lobe	brain
13	chr15:44402800-44403400	Weak transcription	Brain Substantia Nigra	brain
14	chr15:44403200-44403400	Enhancers	Fetal Brain Female	brain
15	chr15:44403200-44404000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links