Variant report

Variant	rs57769940
Chromosome Location	chr15:72854301-72854302
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	chr15:72765649..72767573-chr15:72851905..72854681,2	MCF-7	breast:
2	chr15:72834799..72837432-chr15:72853952..72855840,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000166233	Chromatin interaction
ENSG00000261423	Chromatin interaction

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10438370	0.83[ASN][1000 genomes]
rs10467946	1.00[EUR][1000 genomes]
rs10518988	0.83[ASN][1000 genomes]
rs11072376	0.83[ASN][1000 genomes]
rs11638897	0.83[ASN][1000 genomes]
rs12900846	0.83[ASN][1000 genomes]
rs12901966	0.83[ASN][1000 genomes]
rs12916097	0.86[AFR][1000 genomes]
rs13379630	1.00[EUR][1000 genomes]
rs16956988	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1812842	0.83[ASN][1000 genomes]
rs2277597	1.00[EUR][1000 genomes]
rs2415135	0.83[ASN][1000 genomes]
rs2415137	0.83[ASN][1000 genomes]
rs35731345	1.00[EUR][1000 genomes]
rs3816151	1.00[EUR][1000 genomes]
rs3842946	0.83[ASN][1000 genomes]
rs4146286	0.83[ASN][1000 genomes]
rs4776602	0.83[ASN][1000 genomes]
rs4776603	0.83[ASN][1000 genomes]
rs4777514	0.83[ASN][1000 genomes]
rs57155740	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs57287802	1.00[EUR][1000 genomes]
rs58110372	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs58429461	1.00[EUR][1000 genomes]
rs59029026	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs59686861	1.00[EUR][1000 genomes]
rs59751560	1.00[AMR][1000 genomes]
rs60106752	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs60154507	1.00[EUR][1000 genomes]
rs60207997	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs60466172	1.00[AMR][1000 genomes]
rs60920713	1.00[AMR][1000 genomes]
rs7174307	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7175437	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7177472	0.83[ASN][1000 genomes]
rs73442591	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73442595	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73444703	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73444714	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73444720	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73444723	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73444736	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73444755	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73444759	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73444761	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73444773	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73444774	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73444791	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73444794	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73444798	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73444802	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73446604	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73446615	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73446634	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8025088	0.83[ASN][1000 genomes]
rs8026681	0.83[ASN][1000 genomes]
rs8035007	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs8036623	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8036629	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8037282	0.83[ASN][1000 genomes]
rs8038734	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534037	chr15:72659210-72964029	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
2	nsv1050558	chr15:72739150-72860350	Weak transcription Strong transcription Enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases
3	nsv542427	chr15:72739150-72860350	Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases
4	nsv569947	chr15:72800853-72878772	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv1054626	chr15:72811402-72867502	Strong transcription Enhancers Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
6	nsv569948	chr15:72811402-72878772	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
7	esv2758386	chr15:72819785-73120560	Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
8	esv2760039	chr15:72819785-73120560	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
9	nsv428307	chr15:72819785-73120560	Strong transcription Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
10	esv3430383	chr15:72821093-73035167	Strong transcription Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72796800-72855400	Weak transcription	Esophagus	oesophagus
2	chr15:72809000-72855400	Weak transcription	Rectal Smooth Muscle	rectum
3	chr15:72814800-72859200	Weak transcription	Brain Angular Gyrus	brain
4	chr15:72828600-72869800	Weak transcription	Aorta	Aorta
5	chr15:72829200-72880800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr15:72830400-72866800	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr15:72830800-72867400	Weak transcription	Brain Cingulate Gyrus	brain
8	chr15:72831000-72854600	Weak transcription	Brain Hippocampus Middle	brain
9	chr15:72833400-72858600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr15:72833600-72854400	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr15:72833600-72855400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr15:72833600-72855600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr15:72833600-72865000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr15:72833600-72867000	Weak transcription	Right Ventricle	heart
15	chr15:72833600-72870200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr15:72833600-72870400	Weak transcription	Gastric	stomach
17	chr15:72833800-72856000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr15:72834800-72858600	Weak transcription	Psoas Muscle	Psoas
19	chr15:72835200-72876000	Weak transcription	Pancreas	Pancrea
20	chr15:72835600-72870400	Weak transcription	Spleen	Spleen
21	chr15:72836600-72870000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr15:72838600-72855400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
23	chr15:72838600-72862400	Weak transcription	Fetal Heart	heart
24	chr15:72838800-72870400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr15:72839400-72866600	Weak transcription	Lung	lung
26	chr15:72839800-72857000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr15:72840800-72854400	Weak transcription	NHLF	lung
28	chr15:72841000-72854400	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr15:72841000-72909000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr15:72844400-72870000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr15:72844600-72870400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr15:72845200-72858400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr15:72845400-72856800	Weak transcription	Small Intestine	intestine
34	chr15:72845600-72859000	Strong transcription	Fetal Intestine Large	intestine
35	chr15:72846200-72857600	Strong transcription	Primary T cells from cord blood	blood
36	chr15:72846400-72858800	Weak transcription	Pancreatic Islets	Pancreatic Islet
37	chr15:72846600-72865400	Strong transcription	Rectal Mucosa Donor 31	rectum
38	chr15:72846600-72868600	Strong transcription	Primary T helper cells fromperipheralblood	blood
39	chr15:72846600-72878400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
40	chr15:72846800-72870200	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr15:72847000-72878400	Strong transcription	Primary T cells fromperipheralblood	blood
42	chr15:72847200-72867400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr15:72847200-72870000	Strong transcription	HUES64 Cell Line	embryonic stem cell
44	chr15:72847400-72855600	Weak transcription	Ovary	ovary
45	chr15:72847600-72860800	Strong transcription	Dnd41	blood
46	chr15:72847800-72878000	Strong transcription	Primary B cells from peripheral blood	blood
47	chr15:72847800-72878400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
48	chr15:72848000-72855600	Weak transcription	Muscle Satellite Cultured Cells	--
49	chr15:72848600-72856200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
50	chr15:72848600-72858400	Weak transcription	Fetal Kidney	kidney

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