Variant report

Variant	rs7168829
Chromosome Location	chr15:73369468-73369469
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	chr15:73366653..73368204-chr15:73368418..73370771,2	MCF-7	breast:
2	chr15:73356525..73360663-chr15:73369090..73372368,3	MCF-7	breast:

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs11072404	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12592184	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1320241	0.92[EUR][1000 genomes]
rs1479336	0.83[EUR][1000 genomes]
rs1620369	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1621216	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1631796	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1678246	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1678247	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16957640	0.94[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs1871387	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2619257	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2619258	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2623989	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2623991	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2623992	0.92[EUR][1000 genomes]
rs2660825	0.92[EUR][1000 genomes]
rs2660828	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2680345	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2680346	0.90[EUR][1000 genomes]
rs28462360	0.96[ASN][1000 genomes]
rs28619899	0.95[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs4564531	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4570800	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4776627	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4776629	0.92[EUR][1000 genomes]
rs489873	0.85[EUR][1000 genomes]
rs499098	0.83[EUR][1000 genomes]
rs513744	0.83[EUR][1000 genomes]
rs525587	0.81[EUR][1000 genomes]
rs55787640	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56402186	0.92[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs56753901	0.95[ASN][1000 genomes]
rs58859253	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs59537860	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs60685845	0.98[ASN][1000 genomes]
rs6495056	0.96[ASN][1000 genomes]
rs66466251	0.95[ASN][1000 genomes]
rs66881913	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs66931013	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67178516	0.96[ASN][1000 genomes]
rs67928653	0.95[ASN][1000 genomes]
rs68053508	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs68123262	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7163504	0.82[ASN][1000 genomes]
rs7168651	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7170328	0.95[ASN][1000 genomes]
rs7177002	0.95[ASN][1000 genomes]
rs7177629	0.89[ASN][1000 genomes]
rs72739445	0.95[ASN][1000 genomes]
rs8033192	0.98[ASN][1000 genomes]
rs8037761	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8039308	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8041219	0.97[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs9806271	0.92[EUR][1000 genomes];0.87[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	esv3352103	chr15:73191535-73454001	Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv482421	chr15:73279141-73426897	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
3	nsv904338	chr15:73313691-73483718	Enhancers Active TSS Strong transcription ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv517966	chr15:73349633-73488753	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv525462	chr15:73349633-73563495	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73359200-73370600	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr15:73361000-73372400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr15:73363400-73370200	Weak transcription	Ovary	ovary
4	chr15:73365000-73374000	Enhancers	Brain Angular Gyrus	brain
5	chr15:73365800-73370600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr15:73366000-73370800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr15:73366600-73370200	Weak transcription	Stomach Mucosa	stomach
8	chr15:73366800-73370600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr15:73367000-73371800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
10	chr15:73367200-73370000	Weak transcription	Duodenum Mucosa	Duodenum
11	chr15:73367200-73370200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr15:73367200-73370200	Weak transcription	Gastric	stomach
13	chr15:73367200-73370200	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr15:73367200-73370800	Weak transcription	Fetal Lung	lung
15	chr15:73367800-73370000	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr15:73367800-73370800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr15:73368000-73370200	Weak transcription	Small Intestine	intestine
18	chr15:73368000-73370600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr15:73368000-73370800	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr15:73368000-73370800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr15:73368000-73370800	Weak transcription	Fetal Intestine Small	intestine
22	chr15:73368000-73371000	Weak transcription	Fetal Intestine Large	intestine
23	chr15:73368200-73370000	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr15:73368200-73370000	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr15:73368200-73370200	Weak transcription	Colon Smooth Muscle	Colon
26	chr15:73368200-73370800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr15:73368200-73370800	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr15:73368200-73370800	Weak transcription	NHEK	skin
29	chr15:73368200-73375600	Enhancers	Brain Substantia Nigra	brain
30	chr15:73368200-73381000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr15:73368400-73370000	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr15:73368400-73370200	Weak transcription	Fetal Brain Male	brain
33	chr15:73368400-73370800	Weak transcription	Hela-S3	cervix
34	chr15:73368400-73371000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr15:73368400-73373200	Enhancers	Brain Anterior Caudate	brain
36	chr15:73368600-73370800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr15:73368600-73371000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr15:73368600-73375200	Weak transcription	Aorta	Aorta
39	chr15:73368800-73370200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr15:73368800-73370400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
41	chr15:73368800-73371800	Enhancers	Rectal Smooth Muscle	rectum
42	chr15:73369000-73369800	Weak transcription	Brain Inferior Temporal Lobe	brain
43	chr15:73369000-73370600	Weak transcription	Skeletal Muscle Male	skeletal muscle
44	chr15:73369200-73369600	Weak transcription	Brain Cingulate Gyrus	brain
45	chr15:73369200-73369600	Weak transcription	Brain Hippocampus Middle	brain
46	chr15:73369200-73370200	Weak transcription	Psoas Muscle	Psoas
47	chr15:73369200-73374600	Weak transcription	Pancreatic Islets	Pancreatic Islet

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