Variant report

Variant	rs74017345
Chromosome Location	chr15:59349986-59349987
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	chr15:59344021..59346985-chr15:59348905..59351426,2	MCF-7	breast:

Extended variants
information (count: 85 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs12438949	0.81[EUR][1000 genomes]
rs12443442	0.91[EUR][1000 genomes]
rs16941030	0.83[EUR][1000 genomes]
rs16941040	0.83[EUR][1000 genomes]
rs16941042	0.83[EUR][1000 genomes]
rs16941046	0.83[EUR][1000 genomes]
rs16941051	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs16941055	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs16941063	0.83[EUR][1000 genomes]
rs16941069	0.83[EUR][1000 genomes]
rs17236439	0.91[EUR][1000 genomes]
rs2044436	0.83[EUR][1000 genomes]
rs2414620	0.83[EUR][1000 genomes]
rs28365901	0.83[EUR][1000 genomes]
rs28376133	0.83[EUR][1000 genomes]
rs28383490	0.83[EUR][1000 genomes]
rs28383491	0.83[EUR][1000 genomes]
rs28383497	0.83[EUR][1000 genomes]
rs28383502	0.83[EUR][1000 genomes]
rs28383504	0.83[EUR][1000 genomes]
rs28383512	0.81[EUR][1000 genomes]
rs28383513	0.83[EUR][1000 genomes]
rs28383514	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28383519	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28383520	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28383523	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28383531	0.83[EUR][1000 genomes]
rs28383536	0.81[EUR][1000 genomes]
rs28383542	0.83[EUR][1000 genomes]
rs28383545	0.83[EUR][1000 genomes]
rs28383546	0.83[EUR][1000 genomes]
rs28383549	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28383551	0.83[EUR][1000 genomes]
rs28383552	0.83[EUR][1000 genomes]
rs28383553	0.81[EUR][1000 genomes]
rs28383561	0.81[EUR][1000 genomes]
rs28399204	0.83[EUR][1000 genomes]
rs28406885	0.83[EUR][1000 genomes]
rs28491732	0.83[EUR][1000 genomes]
rs28615244	0.83[EUR][1000 genomes]
rs28739024	0.83[EUR][1000 genomes]
rs2899643	0.83[EUR][1000 genomes]
rs3751538	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3764193	0.83[EUR][1000 genomes]
rs3764194	0.83[EUR][1000 genomes]
rs3803449	0.83[EUR][1000 genomes]
rs3809531	0.83[EUR][1000 genomes]
rs4523870	0.83[EUR][1000 genomes]
rs56187627	0.83[EUR][1000 genomes]
rs56294483	0.83[EUR][1000 genomes]
rs56891889	0.83[EUR][1000 genomes]
rs57057009	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs57452205	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57750394	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs57803886	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs58014933	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs58207484	0.81[EUR][1000 genomes]
rs58321899	0.81[EUR][1000 genomes]
rs58827061	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs59037515	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs59398329	0.83[EUR][1000 genomes]
rs59921711	0.83[EUR][1000 genomes]
rs60533405	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs60628647	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs60785075	0.83[EUR][1000 genomes]
rs60899149	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60964484	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61369543	0.81[EUR][1000 genomes]
rs61690344	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6494066	1.00[ASN][1000 genomes]
rs73418826	0.91[EUR][1000 genomes]
rs73418888	0.83[EUR][1000 genomes]
rs73418890	0.83[EUR][1000 genomes]
rs73418896	0.83[EUR][1000 genomes]
rs74017339	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs74017356	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs74017357	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34110	chr15:58949991-59381634	Weak transcription Bivalent Enhancer Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
3	esv1850946	chr15:59174539-59429160	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
4	nsv904271	chr15:59249584-59393011	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv520679	chr15:59268410-59376531	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv520872	chr15:59268410-59395184	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
7	nsv510663	chr15:59310676-59370041	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
8	nsv833025	chr15:59336148-59522176	Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59281200-59352600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr15:59281800-59352200	Weak transcription	Aorta	Aorta
3	chr15:59281800-59353400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr15:59283800-59359000	Weak transcription	Fetal Brain Male	brain
5	chr15:59288400-59351200	Weak transcription	Brain Hippocampus Middle	brain
6	chr15:59305400-59354400	Weak transcription	Gastric	stomach
7	chr15:59306000-59353400	Weak transcription	Fetal Heart	heart
8	chr15:59308400-59358000	Weak transcription	Spleen	Spleen
9	chr15:59309200-59359000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr15:59323600-59359000	Weak transcription	Esophagus	oesophagus
11	chr15:59324000-59350600	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr15:59324000-59350600	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr15:59324000-59351000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr15:59325000-59354800	Weak transcription	Rectal Smooth Muscle	rectum
15	chr15:59325400-59350000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr15:59325400-59352000	Weak transcription	Fetal Lung	lung
17	chr15:59325800-59350600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
18	chr15:59326400-59365200	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr15:59328800-59350600	Weak transcription	Brain Germinal Matrix	brain
20	chr15:59329000-59350800	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr15:59329200-59352200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr15:59329200-59352600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr15:59329400-59352600	Weak transcription	Pancreas	Pancrea
24	chr15:59331000-59351600	Weak transcription	Fetal Brain Female	brain
25	chr15:59332400-59350600	Weak transcription	Thymus	Thymus
26	chr15:59332400-59358200	Weak transcription	Brain Cingulate Gyrus	brain
27	chr15:59335800-59350600	Weak transcription	Lung	lung
28	chr15:59335800-59354400	Weak transcription	Psoas Muscle	Psoas
29	chr15:59339800-59352600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr15:59340000-59350000	Weak transcription	Fetal Muscle Leg	muscle
31	chr15:59340000-59352600	Weak transcription	Ovary	ovary
32	chr15:59340200-59350600	Weak transcription	Fetal Stomach	stomach
33	chr15:59341000-59353600	Weak transcription	H9 Cell Line	embryonic stem cell
34	chr15:59341400-59350600	Weak transcription	Left Ventricle	heart
35	chr15:59342400-59364400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr15:59342400-59365400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr15:59344200-59356200	Strong transcription	K562	blood
38	chr15:59344200-59364400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr15:59344200-59364400	Strong transcription	HUES64 Cell Line	embryonic stem cell
40	chr15:59344400-59354600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr15:59344400-59356200	Strong transcription	A549	lung
42	chr15:59344400-59358000	Weak transcription	Right Ventricle	heart
43	chr15:59344400-59363200	Strong transcription	Duodenum Mucosa	Duodenum
44	chr15:59344400-59364200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
45	chr15:59344400-59392800	Strong transcription	Monocytes-CD14+_RO01746	blood
46	chr15:59344600-59363200	Strong transcription	Primary T helper cells PMA-I stimulated	--
47	chr15:59344600-59363800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr15:59344600-59363800	Strong transcription	Fetal Thymus	thymus
49	chr15:59344800-59352200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr15:59344800-59353400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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