Variant report

Variant	rs2555380
Chromosome Location	chr15:44412635-44412636
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:44411819..44414113-chr15:44419254..44421661,2	MCF-7	breast:

Extended variants
information (count: 153 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:140)

rs_ID	r²[population]
rs10152607	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10459588	1.00[CEU][hapmap]
rs10518994	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs10851415	1.00[CEU][hapmap];0.93[YRI][hapmap];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10851416	1.00[CEU][hapmap];0.96[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11070419	1.00[CEU][hapmap];0.96[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1115870	1.00[CEU][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1160066	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11631340	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs11632901	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11635948	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs11638352	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11854312	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs11857696	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs12324261	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12437804	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs12591537	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs12900237	1.00[CEU][hapmap]
rs12900880	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs12913809	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1365456	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1426657	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs1426658	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs1807974	0.83[EUR][1000 genomes]
rs1808509	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs1813196	0.92[AFR][1000 genomes]
rs1820482	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs1820484	0.88[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs1820485	0.80[EUR][1000 genomes]
rs1834641	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs2015277	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs2019074	1.00[EUR][1000 genomes]
rs2042738	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs2042739	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs2042741	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs2059626	0.94[EUR][1000 genomes]
rs2059627	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2059628	1.00[EUR][1000 genomes]
rs2114416	0.88[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs2114420	0.85[EUR][1000 genomes]
rs2114421	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs2114422	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs2162365	1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs2162366	1.00[CEU][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs2217108	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs2412845	1.00[CEU][hapmap];0.93[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2412846	1.00[CEU][hapmap];0.93[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2412847	0.88[EUR][1000 genomes]
rs2412848	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2412849	1.00[CEU][hapmap]
rs2412850	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs2412851	1.00[CEU][hapmap];0.96[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2412852	0.85[EUR][1000 genomes]
rs2412853	0.92[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2412854	1.00[CEU][hapmap];0.92[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2412855	0.85[EUR][1000 genomes]
rs2555368	0.80[EUR][1000 genomes]
rs2555375	1.00[CEU][hapmap];0.96[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2555376	1.00[CEU][hapmap]
rs2555382	0.80[EUR][1000 genomes]
rs2555384	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs2555385	1.00[EUR][1000 genomes]
rs2555387	1.00[CEU][hapmap]
rs2555389	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs2615268	0.85[AFR][1000 genomes]
rs2615269	0.80[EUR][1000 genomes]
rs2615272	0.86[AFR][1000 genomes]
rs2615278	1.00[CEU][hapmap]
rs2615280	0.80[EUR][1000 genomes]
rs2615281	1.00[CEU][hapmap]
rs2615285	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2615286	0.80[EUR][1000 genomes]
rs2615287	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2615288	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2615290	1.00[EUR][1000 genomes]
rs2615291	0.97[EUR][1000 genomes]
rs2615292	1.00[EUR][1000 genomes]
rs2615293	1.00[CEU][hapmap]
rs2615294	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2615295	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2615297	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2615299	1.00[CEU][hapmap]
rs2623017	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2623019	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs2696094	1.00[CEU][hapmap]
rs2696098	1.00[CEU][hapmap]
rs2706471	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2706472	1.00[CEU][hapmap]
rs2706473	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2706474	1.00[EUR][1000 genomes]
rs2706481	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs2706486	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs2706487	1.00[CEU][hapmap];0.88[AFR][1000 genomes]
rs2706488	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs2706490	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs2706492	0.80[EUR][1000 genomes]
rs2706495	1.00[CEU][hapmap]
rs2733201	0.89[AFR][1000 genomes]
rs2733203	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2733204	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2733208	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs2733209	1.00[CEU][hapmap]
rs2733213	1.00[CEU][hapmap]
rs2733221	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2733226	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs28667396	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2899103	1.00[CEU][hapmap];0.96[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2929281	1.00[CEU][hapmap];0.93[YRI][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2930528	1.00[CEU][hapmap];0.93[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2957581	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2957583	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs3919618	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4419034	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs4923969	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4923972	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4923976	1.00[CEU][hapmap]
rs4924727	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs4924728	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs4924729	1.00[CEU][hapmap];0.96[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4924731	0.93[YRI][hapmap];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4924734	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4924735	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4924737	1.00[CEU][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6493092	1.00[CEU][hapmap];0.96[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6493093	1.00[CEU][hapmap];0.96[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6493094	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs7166715	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs7176955	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs8033233	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs8035212	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs8036541	1.00[CEU][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs8037441	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs8037596	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs8038096	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs8041487	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs8041650	0.82[AMR][1000 genomes]
rs8042697	0.80[EUR][1000 genomes]
rs890465	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs958485	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs9920249	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 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
12	nsv904175	chr15:44403988-44538660	Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
13	nsv904176	chr15:44403988-44579854	Bivalent Enhancer Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:44396200-44413000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr15:44410200-44421800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr15:44411800-44413200	Enhancers	Brain Anterior Caudate	brain
4	chr15:44411800-44413400	Enhancers	Brain Hippocampus Middle	brain
5	chr15:44411800-44413400	Enhancers	Brain Substantia Nigra	brain
6	chr15:44412000-44412800	Enhancers	Fetal Heart	heart
7	chr15:44412200-44412800	Enhancers	Brain Angular Gyrus	brain
8	chr15:44412200-44413800	Enhancers	NHEK	skin
9	chr15:44412600-44417600	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr15:44412600-44421000	Weak transcription	Brain Cingulate Gyrus	brain

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