Variant report

Variant	rs73417477
Chromosome Location	chr9:16553182-16553183
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:16520489..16522214-chr9:16551948..16553682,2	MCF-7	breast:

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10116857	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10118895	0.90[EUR][1000 genomes]
rs10120002	0.80[EUR][1000 genomes]
rs10120281	0.84[EUR][1000 genomes]
rs10122372	0.85[EUR][1000 genomes]
rs10123515	0.92[EUR][1000 genomes]
rs10124530	0.84[EUR][1000 genomes]
rs10125014	0.88[EUR][1000 genomes]
rs1029016	0.84[AMR][1000 genomes]
rs10733311	0.80[AMR][1000 genomes]
rs10738437	0.80[AMR][1000 genomes]
rs10738440	0.90[EUR][1000 genomes]
rs10756764	0.90[EUR][1000 genomes]
rs10962484	1.00[EUR][1000 genomes]
rs10962488	0.83[AFR][1000 genomes]
rs10962510	0.90[EUR][1000 genomes]
rs12004304	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12339625	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12340504	0.86[EUR][1000 genomes]
rs12350242	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1415475	0.82[EUR][1000 genomes]
rs1538102	0.83[EUR][1000 genomes]
rs16934816	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs16934842	0.84[EUR][1000 genomes]
rs16934855	0.93[EUR][1000 genomes]
rs16934886	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17738890	0.97[EUR][1000 genomes]
rs2095657	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2149159	0.82[EUR][1000 genomes]
rs2382808	0.90[AFR][1000 genomes]
rs2382810	0.90[AFR][1000 genomes]
rs28428651	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28457730	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28490464	0.84[EUR][1000 genomes]
rs28501274	0.90[EUR][1000 genomes]
rs28648047	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28651010	0.93[EUR][1000 genomes]
rs4466493	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4961725	0.86[EUR][1000 genomes]
rs56218971	0.97[EUR][1000 genomes]
rs59379949	0.88[EUR][1000 genomes]
rs6475059	0.90[AFR][1000 genomes]
rs7018743	0.88[EUR][1000 genomes]
rs7018877	0.86[EUR][1000 genomes]
rs7019016	0.86[EUR][1000 genomes]
rs7019105	0.86[EUR][1000 genomes]
rs7019625	0.86[EUR][1000 genomes]
rs7032239	0.88[EUR][1000 genomes]
rs7032772	0.84[EUR][1000 genomes]
rs7036282	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7048805	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs725011	0.84[EUR][1000 genomes]
rs7470623	0.84[EUR][1000 genomes]
rs7854979	0.86[EUR][1000 genomes]
rs7859395	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7859971	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7862214	0.80[EUR][1000 genomes]
rs7870380	0.81[EUR][1000 genomes]
rs7870508	0.88[EUR][1000 genomes]
rs7870730	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7873338	0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530933	chr9:16251206-16830845	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv530934	chr9:16281246-16779432	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv1032856	chr9:16465330-16773471	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv540073	chr9:16465330-16773471	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16528000-16553200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr9:16542600-16564000	Weak transcription	HUVEC	blood vessel
3	chr9:16542800-16554800	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr9:16543800-16554600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr9:16543800-16567000	Weak transcription	HSMMtube	muscle
6	chr9:16544000-16559600	Weak transcription	Small Intestine	intestine
7	chr9:16545000-16554000	Weak transcription	Fetal Kidney	kidney
8	chr9:16546000-16554600	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr9:16546000-16559600	Weak transcription	Rectal Smooth Muscle	rectum
10	chr9:16546000-16559800	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr9:16546000-16568400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr9:16550000-16556400	Weak transcription	Fetal Intestine Small	intestine
13	chr9:16550200-16554000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr9:16550600-16553400	Strong transcription	NHDF-Ad	bronchial
15	chr9:16550800-16553200	Strong transcription	Osteobl	bone
16	chr9:16550800-16559800	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr9:16551400-16553800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr9:16551600-16554000	Weak transcription	Fetal Lung	lung
19	chr9:16551800-16567800	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr9:16552000-16559600	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr9:16552000-16567800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr9:16552200-16559000	Weak transcription	Colon Smooth Muscle	Colon
23	chr9:16552400-16553600	Enhancers	iPS-20b Cell Line	embryonic stem cell
24	chr9:16552600-16554600	Weak transcription	NH-A	brain
25	chr9:16552600-16555400	Weak transcription	Fetal Muscle Trunk	muscle
26	chr9:16552600-16556000	Weak transcription	HSMM	muscle
27	chr9:16552800-16553200	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr9:16552800-16553200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr9:16552800-16553400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr9:16552800-16553400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr9:16552800-16553600	Weak transcription	Fetal Stomach	stomach
32	chr9:16552800-16553800	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr9:16552800-16553800	Weak transcription	Ovary	ovary
34	chr9:16552800-16553800	Weak transcription	NHLF	lung
35	chr9:16552800-16554000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr9:16552800-16554600	Weak transcription	Adipose Nuclei	Adipose
37	chr9:16552800-16554600	Weak transcription	Fetal Muscle Leg	muscle
38	chr9:16552800-16556000	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr9:16552800-16557600	Weak transcription	Fetal Intestine Large	intestine
40	chr9:16552800-16557800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr9:16552800-16558400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr9:16552800-16559800	Weak transcription	Stomach Smooth Muscle	stomach
43	chr9:16552800-16566600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr9:16552800-16570200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr9:16552800-16571000	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr9:16552800-16571400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr9:16553000-16553200	Weak transcription	Aorta	Aorta
48	chr9:16553000-16553400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
49	chr9:16553000-16557800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr9:16553000-16559600	Weak transcription	Duodenum Smooth Muscle	Duodenum

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