Variant report

Variant	rs28550059
Chromosome Location	chr3:76093995-76093996
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	chr3:76073881..76074768-chr3:76093884..76094767,3	MCF-7	breast:
2	chr3:75867624..75868149-chr3:76093803..76094658,2	MCF-7	breast:

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11707316	0.89[AMR][1000 genomes]
rs13314078	0.86[AMR][1000 genomes]
rs28766103	0.95[AMR][1000 genomes]
rs28833184	0.95[AMR][1000 genomes]
rs28863513	0.95[AMR][1000 genomes]
rs60519416	0.92[AMR][1000 genomes]
rs62267242	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62267243	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62267247	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62267249	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62267252	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62268885	0.95[AMR][1000 genomes]
rs62268886	0.89[AMR][1000 genomes]
rs62268906	0.84[AMR][1000 genomes]
rs73841082	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9815763	0.89[AMR][1000 genomes]
rs9824142	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9851566	0.95[AMR][1000 genomes]
rs9851838	0.92[AMR][1000 genomes]
rs9852570	0.81[EUR][1000 genomes]
rs9874178	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9880437	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:22 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2763279	chr3:75958155-76107685	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv876995	chr3:76015252-76114539	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1012705	chr3:76047819-76276542	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv998038	chr3:76053664-76218646	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv536591	chr3:76053664-76218646	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv1007586	chr3:76053664-76280612	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv979847	chr3:76058868-76143057	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv999868	chr3:76068393-76274977	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv869827	chr3:76074846-76142916	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
10	esv2760774	chr3:76076446-76097994	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv432458	chr3:76077110-76119510	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv818152	chr3:76077143-76094221	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
13	esv2757876	chr3:76077290-76167295	Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
14	esv3462052	chr3:76083579-76096297	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
15	esv3462049	chr3:76083632-76096137	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
16	esv3462050	chr3:76083641-76096126	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
17	esv3462053	chr3:76083641-76096126	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
18	nsv517731	chr3:76083946-76094221	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
19	esv2422055	chr3:76083946-76096571	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
20	nsv518802	chr3:76083946-76101757	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
21	nsv1009175	chr3:76084525-76103687	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
22	nsv999298	chr3:76084525-76105554	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:76089000-76095400	Enhancers	HUES64 Cell Line	embryonic stem cell
2	chr3:76089200-76094400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr3:76089800-76094600	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr3:76090200-76094200	Enhancers	HUES6 Cell Line	embryonic stem cell
5	chr3:76090400-76099600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr3:76090600-76099800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr3:76090800-76094000	Weak transcription	NH-A	brain
8	chr3:76091000-76094400	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr3:76091200-76094000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr3:76092000-76094200	Enhancers	H1 Cell Line	embryonic stem cell
11	chr3:76092400-76094000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr3:76092400-76094200	Enhancers	H9 Cell Line	embryonic stem cell
13	chr3:76093200-76094000	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
14	chr3:76093200-76094000	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
15	chr3:76093200-76094600	Enhancers	Aorta	Aorta
16	chr3:76093400-76094200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
17	chr3:76093600-76094000	Enhancers	Fetal Stomach	stomach
18	chr3:76093600-76094800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr3:76093600-76094800	Enhancers	HUES48 Cell Line	embryonic stem cell
20	chr3:76093600-76095400	Enhancers	Fetal Intestine Large	intestine
21	chr3:76093800-76094000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr3:76093800-76094200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
23	chr3:76093800-76094200	Enhancers	Fetal Brain Male	brain
24	chr3:76093800-76094200	Enhancers	Fetal Heart	heart
25	chr3:76093800-76095000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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