Variant report

Variant	rs3809531
Chromosome Location	chr15:59377453-59377454
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	STAT3	chr15:59377412-59377519	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
RNF111	TF binding region

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

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs11071408	0.80[ASN][1000 genomes]
rs12438949	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12441365	0.83[ASN][1000 genomes]
rs12443442	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16941030	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16941040	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16941042	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16941046	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16941051	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16941055	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16941063	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16941069	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16953412	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17236439	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2044436	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2414620	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28365901	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28376133	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28383490	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28383491	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28383497	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28383502	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28383504	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28383512	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28383513	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28383514	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28383519	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28383520	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28383523	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28383531	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28383536	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28383542	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28383545	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28383546	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28383549	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28383551	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28383552	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28383553	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28383561	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28399204	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28406885	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28491732	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28615244	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28739024	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2899643	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3751538	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3764193	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3764194	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3803449	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4523870	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56187627	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56294483	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56891889	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57057009	0.83[EUR][1000 genomes]
rs57750394	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57803886	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58014933	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs58207484	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs58321899	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58827061	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59037515	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59398329	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59921711	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60533405	0.83[EUR][1000 genomes]
rs60628647	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60785075	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61369543	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61690344	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7165934	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs73418826	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73418888	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73418890	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73418896	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs74017339	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs74017345	0.83[EUR][1000 genomes]
rs74017356	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74017357	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8035850	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8043536	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	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
6	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:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59344400-59392800	Strong transcription	Monocytes-CD14+_RO01746	blood
2	chr15:59350800-59384600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr15:59354000-59390600	Strong transcription	Primary B cells from peripheral blood	blood
4	chr15:59354400-59396800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr15:59355400-59392800	Strong transcription	Primary monocytes fromperipheralblood	blood
6	chr15:59355600-59378400	Strong transcription	Osteobl	bone
7	chr15:59355600-59392800	Strong transcription	Liver	Liver
8	chr15:59355600-59396600	Weak transcription	Fetal Heart	heart
9	chr15:59355800-59386800	Weak transcription	Stomach Mucosa	stomach
10	chr15:59359400-59396600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr15:59364800-59392600	Strong transcription	Primary neutrophils fromperipheralblood	blood
12	chr15:59365400-59378000	Strong transcription	HUES64 Cell Line	embryonic stem cell
13	chr15:59365800-59390600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr15:59366400-59390600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr15:59367400-59390800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr15:59367600-59390200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr15:59367600-59390600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
18	chr15:59367800-59389800	Strong transcription	Primary T helper cells fromperipheralblood	blood
19	chr15:59368000-59379600	Strong transcription	Placenta	Placenta
20	chr15:59368000-59379800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr15:59368200-59377800	Strong transcription	Adipose Nuclei	Adipose
22	chr15:59368200-59378400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
23	chr15:59368200-59379600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr15:59368200-59389800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr15:59368200-59390200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr15:59368200-59392800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
27	chr15:59368600-59389800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr15:59370200-59378000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr15:59370400-59383800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
30	chr15:59371600-59392800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr15:59371800-59389200	Strong transcription	Duodenum Mucosa	Duodenum
32	chr15:59372000-59380000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr15:59372000-59380200	Strong transcription	GM12878-XiMat	blood
34	chr15:59372400-59378000	Strong transcription	Fetal Stomach	stomach
35	chr15:59372400-59386000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr15:59372400-59386000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr15:59372400-59390400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr15:59372800-59378200	Strong transcription	HUES48 Cell Line	embryonic stem cell
39	chr15:59373000-59378000	Strong transcription	Brain Germinal Matrix	brain
40	chr15:59373000-59379000	Strong transcription	Fetal Muscle Leg	muscle
41	chr15:59373000-59379400	Strong transcription	Fetal Muscle Trunk	muscle
42	chr15:59373000-59386000	Strong transcription	Fetal Intestine Large	intestine
43	chr15:59373000-59386000	Strong transcription	Fetal Thymus	thymus
44	chr15:59373000-59389200	Strong transcription	Primary T cells fromperipheralblood	blood
45	chr15:59373000-59389200	Strong transcription	Rectal Mucosa Donor 31	rectum
46	chr15:59373000-59390400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr15:59373200-59378000	Strong transcription	Sigmoid Colon	Sigmoid Colon
48	chr15:59373200-59378000	Strong transcription	K562	blood
49	chr15:59373200-59378800	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
50	chr15:59373200-59379400	Strong transcription	Hela-S3	cervix

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