Variant report

Variant	rs7045505
Chromosome Location	chr9:79249761-79249762
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	chr9:79249647..79252169-chr9:79252243..79253887,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10521475	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];0.83[GIH][hapmap];0.90[JPT][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11144986	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.92[GIH][hapmap];0.82[JPT][hapmap];0.85[MKK][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11144987	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11144992	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11144996	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.83[GIH][hapmap];0.90[JPT][hapmap];0.94[ASN][1000 genomes]
rs17062768	1.00[CEU][hapmap]
rs17062772	1.00[CEU][hapmap]
rs17062775	1.00[CEU][hapmap]
rs17062778	1.00[CEU][hapmap]
rs17062858	1.00[CEU][hapmap];1.00[CHB][hapmap];0.80[CHD][hapmap];0.92[GIH][hapmap];0.82[JPT][hapmap];0.82[MKK][hapmap];0.86[YRI][hapmap];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1854441	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];0.92[GIH][hapmap];0.82[JPT][hapmap];0.95[ASN][1000 genomes]
rs1952460	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2067501	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs499746	1.00[CEU][hapmap]
rs57389265	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs634063	0.93[CHB][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs637207	1.00[CEU][hapmap]
rs644893	1.00[CEU][hapmap]
rs7027074	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7028756	0.89[ASN][1000 genomes]
rs7038619	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7039310	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs7847922	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7859873	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.83[GIH][hapmap];0.90[JPT][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869152	chr9:78742197-79583399	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv931033	chr9:78850330-79366454	Genic enhancers Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv893479	chr9:78971253-79275226	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv949417	chr9:79078703-79282589	Strong transcription Genic enhancers Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv1040363	chr9:79246366-79711737	Weak transcription Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:79225400-79265600	Weak transcription	Fetal Muscle Leg	muscle
2	chr9:79232800-79261400	Weak transcription	Colonic Mucosa	Colon
3	chr9:79234200-79252200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr9:79234400-79257800	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr9:79234400-79259600	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr9:79236000-79257000	Weak transcription	Osteobl	bone
7	chr9:79236200-79252400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr9:79236200-79257400	Weak transcription	Adipose Nuclei	Adipose
9	chr9:79236200-79257600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr9:79238600-79261200	Strong transcription	HSMM	muscle
11	chr9:79239600-79254400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr9:79240000-79260800	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr9:79241000-79260800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr9:79243400-79252800	Weak transcription	Primary B cells from cord blood	blood
15	chr9:79243800-79249800	Strong transcription	Brain Inferior Temporal Lobe	brain
16	chr9:79244000-79250000	Strong transcription	Brain Hippocampus Middle	brain
17	chr9:79244000-79257200	Weak transcription	Fetal Thymus	thymus
18	chr9:79244600-79260200	Strong transcription	HSMMtube	muscle
19	chr9:79245000-79252000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr9:79245800-79250000	Strong transcription	Brain Anterior Caudate	brain
21	chr9:79246800-79254800	Weak transcription	Fetal Heart	heart
22	chr9:79247200-79252000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr9:79247600-79255400	Weak transcription	Brain Angular Gyrus	brain
24	chr9:79247600-79258200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr9:79247600-79258400	Weak transcription	Rectal Smooth Muscle	rectum
26	chr9:79248200-79254800	Enhancers	Primary neutrophils fromperipheralblood	blood
27	chr9:79248400-79251800	Weak transcription	Gastric	stomach
28	chr9:79248400-79256600	Weak transcription	Aorta	Aorta
29	chr9:79248400-79257600	Weak transcription	Fetal Stomach	stomach
30	chr9:79248600-79249800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr9:79248600-79249800	Strong transcription	Brain Substantia Nigra	brain
32	chr9:79248600-79250000	Enhancers	Fetal Intestine Large	intestine
33	chr9:79248800-79250800	Weak transcription	Stomach Smooth Muscle	stomach
34	chr9:79248800-79257000	Weak transcription	Brain Cingulate Gyrus	brain
35	chr9:79249200-79249800	Enhancers	HepG2	liver
36	chr9:79249200-79250000	Enhancers	Muscle Satellite Cultured Cells	--
37	chr9:79249200-79250000	Enhancers	HUVEC	blood vessel
38	chr9:79249200-79250000	Enhancers	Monocytes-CD14+_RO01746	blood
39	chr9:79249200-79257200	Weak transcription	Duodenum Mucosa	Duodenum
40	chr9:79249400-79249800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr9:79249400-79249800	Enhancers	A549	lung
42	chr9:79249400-79250000	Enhancers	Pancreas	Pancrea
43	chr9:79249400-79252200	Weak transcription	Primary hematopoietic stem cells	blood
44	chr9:79249400-79254600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr9:79249600-79250400	Enhancers	Stomach Mucosa	stomach
46	chr9:79249600-79251200	Weak transcription	Colon Smooth Muscle	Colon
47	chr9:79249600-79251800	Weak transcription	Primary monocytes fromperipheralblood	blood
48	chr9:79249600-79251800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
49	chr9:79249600-79252800	Weak transcription	Fetal Intestine Small	intestine
50	chr9:79249600-79252800	Weak transcription	Small Intestine	intestine

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