Variant report

Variant	rs59390721
Chromosome Location	chr15:75403794-75403795
allele	C/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	RUNX3	chr15:75403471-75403797	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:75337715..75339943-chr15:75401939..75403865,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000260152	TF binding region

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

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs1021382	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10775208	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10851877	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10851878	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11072525	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11072526	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11072528	0.88[ASN][1000 genomes]
rs11638746	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12102035	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12442392	0.88[ASN][1000 genomes]
rs12442410	0.88[ASN][1000 genomes]
rs12910348	0.87[ASN][1000 genomes]
rs12914536	0.88[ASN][1000 genomes]
rs12917185	0.88[ASN][1000 genomes]
rs12917304	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1602360	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1806793	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1806794	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1867147	0.83[ASN][1000 genomes]
rs2029519	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2029520	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2415158	0.85[ASN][1000 genomes]
rs2415159	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28767543	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34180494	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34511319	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4243032	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4334268	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4381563	0.85[EUR][1000 genomes]
rs4421941	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4479194	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4480765	0.87[ASN][1000 genomes]
rs4519311	0.87[ASN][1000 genomes]
rs4886420	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4886422	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4886656	0.85[EUR][1000 genomes]
rs4886657	0.85[EUR][1000 genomes]
rs4886658	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4886661	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4886667	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4886668	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4886669	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4995269	0.85[EUR][1000 genomes]
rs55662404	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs58201389	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6495153	0.88[ASN][1000 genomes]
rs6495154	0.88[ASN][1000 genomes]
rs6495155	0.88[ASN][1000 genomes]
rs6495158	0.86[ASN][1000 genomes]
rs7162055	0.84[ASN][1000 genomes]
rs7162376	0.83[ASN][1000 genomes]
rs7163083	0.88[ASN][1000 genomes]
rs7166695	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7168020	0.81[ASN][1000 genomes]
rs7169545	0.88[ASN][1000 genomes]
rs7169867	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7172205	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7172677	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7177528	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7178005	0.88[ASN][1000 genomes]
rs7178625	0.88[ASN][1000 genomes]
rs7178784	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7179426	0.88[ASN][1000 genomes]
rs7179436	0.85[EUR][1000 genomes]
rs7181933	0.88[ASN][1000 genomes]
rs72730598	0.85[EUR][1000 genomes]
rs72730601	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8025412	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8026273	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8027604	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8028146	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8029092	0.83[EUR][1000 genomes]
rs8029756	0.88[ASN][1000 genomes]
rs8029760	0.88[ASN][1000 genomes]
rs8032208	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8033754	0.88[ASN][1000 genomes]
rs8035588	0.80[ASN][1000 genomes]
rs8035789	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv569993	chr15:75242155-75483752	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	72 gene(s)	inside rSNPs	diseases
2	nsv457205	chr15:75336729-75447773	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv569994	chr15:75336729-75447773	Genic enhancers Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv904383	chr15:75382542-75520378	Weak transcription Genic enhancers Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
5	esv1796196	chr15:75389382-75531124	Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
6	nsv1039713	chr15:75394213-75674389	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
7	nsv1037713	chr15:75401213-75665304	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:75395600-75405800	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr15:75396600-75405600	Enhancers	Primary hematopoietic stem cells	blood
3	chr15:75396600-75406200	Enhancers	Primary B cells from cord blood	blood
4	chr15:75397600-75406800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr15:75397600-75415800	Weak transcription	Ovary	ovary
6	chr15:75400400-75404400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
7	chr15:75400400-75404600	Enhancers	Fetal Thymus	thymus
8	chr15:75400600-75403800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr15:75400800-75403800	Enhancers	Spleen	Spleen
10	chr15:75401000-75404400	Enhancers	GM12878-XiMat	blood
11	chr15:75401000-75405000	Weak transcription	Adipose Nuclei	Adipose
12	chr15:75401200-75430600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr15:75401400-75404400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr15:75401600-75404800	Weak transcription	HepG2	liver
15	chr15:75401800-75404400	Enhancers	Monocytes-CD14+_RO01746	blood
16	chr15:75401800-75408000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr15:75402000-75404400	Weak transcription	Fetal Intestine Large	intestine
18	chr15:75402200-75404400	Weak transcription	Hela-S3	cervix
19	chr15:75402200-75406000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr15:75402400-75404400	Weak transcription	Fetal Intestine Small	intestine
21	chr15:75402400-75404800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr15:75402400-75406600	Weak transcription	Duodenum Mucosa	Duodenum
23	chr15:75402400-75406600	Weak transcription	Lung	lung
24	chr15:75402600-75406600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr15:75402800-75404400	Enhancers	Primary neutrophils fromperipheralblood	blood
26	chr15:75403200-75405400	Enhancers	Primary hematopoietic stem cells short term culture	blood
27	chr15:75403400-75404400	Weak transcription	Placenta	Placenta
28	chr15:75403400-75404800	Enhancers	K562	blood
29	chr15:75403600-75404400	Weak transcription	Pancreas	Pancrea
30	chr15:75403600-75404800	Weak transcription	Primary B cells from peripheral blood	blood
31	chr15:75403600-75406600	Weak transcription	Rectal Mucosa Donor 29	rectum

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