Variant report

Variant	rs56402186
Chromosome Location	chr15:73349005-73349006
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:73074430..73076161-chr15:73348280..73350675,2	MCF-7	breast:
2	chr15:73348449..73350291-chr15:73354149..73355949,2	MCF-7	breast:
3	chr15:73095998..73099016-chr15:73347374..73350745,4	MCF-7	breast:
4	chr15:73343741..73345939-chr15:73347113..73349925,2	K562	blood:
5	chr15:73342947..73345241-chr15:73347113..73349760,2	K562	blood:

Variant related genes	Relation type
ENSG00000159322	Chromatin interaction
ENSG00000260898	Chromatin interaction
ENSG00000067141	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11072404	0.89[ASN][1000 genomes]
rs12592184	0.98[ASN][1000 genomes]
rs1620369	0.86[ASN][1000 genomes]
rs1621216	0.82[ASN][1000 genomes]
rs1631796	0.84[ASN][1000 genomes]
rs1678246	0.86[ASN][1000 genomes]
rs1678247	0.82[ASN][1000 genomes]
rs16957640	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs1871387	0.86[ASN][1000 genomes]
rs2619257	0.86[ASN][1000 genomes]
rs2619258	0.86[ASN][1000 genomes]
rs2660828	0.82[ASN][1000 genomes]
rs2680345	0.86[ASN][1000 genomes]
rs28462360	0.96[ASN][1000 genomes]
rs28619899	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4564531	0.86[ASN][1000 genomes]
rs4570800	0.84[ASN][1000 genomes]
rs4776627	0.87[ASN][1000 genomes]
rs55787640	0.80[ASN][1000 genomes]
rs56753901	0.91[ASN][1000 genomes]
rs58859253	0.84[ASN][1000 genomes]
rs59537860	0.84[ASN][1000 genomes]
rs60685845	0.95[ASN][1000 genomes]
rs6495056	0.93[ASN][1000 genomes]
rs66466251	0.98[ASN][1000 genomes]
rs66881913	0.80[ASN][1000 genomes]
rs66931013	0.95[ASN][1000 genomes]
rs67178516	0.93[ASN][1000 genomes]
rs67928653	0.91[ASN][1000 genomes]
rs68123262	0.95[ASN][1000 genomes]
rs7168651	0.95[ASN][1000 genomes]
rs7168829	0.92[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs7170328	0.91[ASN][1000 genomes]
rs7177002	0.91[ASN][1000 genomes]
rs7177629	0.86[ASN][1000 genomes]
rs72739445	0.98[ASN][1000 genomes]
rs8033192	0.95[ASN][1000 genomes]
rs8037761	0.89[ASN][1000 genomes]
rs8039308	0.81[ASN][1000 genomes]
rs8041219	0.89[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs9806271	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73346400-73349400	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr15:73346400-73349600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr15:73346400-73350400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr15:73346400-73350800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr15:73346400-73353400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr15:73346400-73355000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr15:73346400-73355400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr15:73346800-73349400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
9	chr15:73346800-73353200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr15:73347000-73358800	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr15:73347200-73349200	Enhancers	Brain Cingulate Gyrus	brain
12	chr15:73347200-73349400	Enhancers	Brain Hippocampus Middle	brain
13	chr15:73347200-73349800	Enhancers	Brain Angular Gyrus	brain
14	chr15:73347200-73350600	Weak transcription	Liver	Liver
15	chr15:73347200-73352600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr15:73347200-73354400	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr15:73347600-73350400	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr15:73347600-73350600	Weak transcription	Fetal Intestine Small	intestine
19	chr15:73347600-73351000	Enhancers	Fetal Brain Male	brain
20	chr15:73347600-73354200	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr15:73348000-73349200	Enhancers	Sigmoid Colon	Sigmoid Colon
22	chr15:73348000-73349400	Enhancers	Rectal Mucosa Donor 31	rectum
23	chr15:73348000-73351200	Weak transcription	Fetal Kidney	kidney
24	chr15:73348200-73355600	Weak transcription	Fetal Lung	lung
25	chr15:73348400-73349200	Enhancers	Rectal Mucosa Donor 29	rectum
26	chr15:73348400-73350600	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr15:73348600-73349600	Enhancers	Brain Substantia Nigra	brain
28	chr15:73348600-73350600	Weak transcription	Small Intestine	intestine
29	chr15:73348600-73353000	Weak transcription	Aorta	Aorta
30	chr15:73348600-73353400	Weak transcription	Duodenum Mucosa	Duodenum
31	chr15:73348600-73353600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr15:73348600-73355000	Weak transcription	H9 Cell Line	embryonic stem cell
33	chr15:73348800-73349200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr15:73348800-73349400	Enhancers	Fetal Brain Female	brain
35	chr15:73348800-73353200	Weak transcription	Fetal Intestine Large	intestine
36	chr15:73349000-73349400	Enhancers	Brain Anterior Caudate	brain
37	chr15:73349000-73353600	Weak transcription	Psoas Muscle	Psoas

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