Variant report

Variant	rs56736462
Chromosome Location	chr3:135748276-135748277
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	chr3:135682268..135685211-chr3:135746856..135748620,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000073711	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs16843592	0.94[AFR][1000 genomes]
rs16843633	0.88[AFR][1000 genomes]
rs16843661	1.00[AFR][1000 genomes]
rs57374999	0.88[AFR][1000 genomes]
rs58030391	0.89[AFR][1000 genomes]
rs58096685	1.00[AFR][1000 genomes]
rs58503058	1.00[AFR][1000 genomes]
rs59720283	1.00[AFR][1000 genomes]
rs59985749	1.00[AFR][1000 genomes]
rs60165730	1.00[AFR][1000 genomes]
rs60393211	0.88[AFR][1000 genomes]
rs60707425	0.88[AFR][1000 genomes]
rs61209689	0.89[AFR][1000 genomes]
rs72981415	1.00[AFR][1000 genomes]
rs72981481	0.89[AFR][1000 genomes]
rs72981494	1.00[AFR][1000 genomes]
rs72983403	1.00[AFR][1000 genomes]
rs72983409	1.00[AFR][1000 genomes]
rs72983437	1.00[AFR][1000 genomes]
rs72983449	0.89[AFR][1000 genomes]
rs72983474	1.00[AFR][1000 genomes]
rs72983475	1.00[AFR][1000 genomes]
rs72983479	1.00[AFR][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	nsv460860	chr3:135107678-135769006	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv591829	chr3:135107678-135769006	Flanking Active TSS Strong transcription Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv829732	chr3:135561706-135756840	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135718000-135753000	Weak transcription	Fetal Kidney	kidney
2	chr3:135721800-135763600	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr3:135726400-135758400	Weak transcription	Lung	lung
4	chr3:135727400-135760600	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr3:135727800-135769400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr3:135735800-135760600	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr3:135738000-135750000	Weak transcription	Brain Substantia Nigra	brain
8	chr3:135738000-135758400	Weak transcription	Gastric	stomach
9	chr3:135738000-135761200	Weak transcription	Fetal Brain Male	brain
10	chr3:135738000-135775800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr3:135738200-135749600	Weak transcription	Brain Angular Gyrus	brain
12	chr3:135738400-135763600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr3:135738400-135763600	Weak transcription	Brain Cingulate Gyrus	brain
14	chr3:135739800-135767800	Weak transcription	NHDF-Ad	bronchial
15	chr3:135741000-135763600	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr3:135741800-135750000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr3:135741800-135759800	Weak transcription	Placenta	Placenta
18	chr3:135742000-135763200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr3:135742000-135763600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr3:135742200-135763600	Weak transcription	Fetal Intestine Small	intestine
21	chr3:135742200-135763600	Weak transcription	NHEK	skin
22	chr3:135742800-135774200	Weak transcription	HMEC	breast
23	chr3:135743000-135755600	Weak transcription	Rectal Smooth Muscle	rectum
24	chr3:135744200-135763600	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr3:135745000-135751200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr3:135745200-135750200	Weak transcription	Brain Anterior Caudate	brain
27	chr3:135745600-135748600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr3:135745600-135750000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr3:135745600-135751200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr3:135745800-135748800	Strong transcription	Fetal Muscle Leg	muscle
31	chr3:135745800-135749000	Strong transcription	Fetal Muscle Trunk	muscle
32	chr3:135745800-135749000	Strong transcription	Stomach Smooth Muscle	stomach
33	chr3:135745800-135750000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr3:135745800-135755200	Weak transcription	Psoas Muscle	Psoas
35	chr3:135746000-135748400	Strong transcription	NH-A	brain
36	chr3:135746000-135748800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr3:135746000-135748800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
38	chr3:135746000-135750600	Weak transcription	Liver	Liver
39	chr3:135746000-135750800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr3:135746200-135748400	Strong transcription	Fetal Intestine Large	intestine
41	chr3:135746200-135748400	Genic enhancers	Skeletal Muscle Male	skeletal muscle
42	chr3:135746200-135790000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr3:135746400-135748600	Strong transcription	Adipose Nuclei	Adipose
44	chr3:135746400-135749000	Strong transcription	Fetal Lung	lung
45	chr3:135746400-135749400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr3:135746400-135749800	Strong transcription	Ovary	ovary
47	chr3:135746400-135763600	Weak transcription	Placenta Amnion	Placenta Amnion
48	chr3:135746600-135748400	Strong transcription	Colonic Mucosa	Colon
49	chr3:135746600-135748400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr3:135746600-135749000	Strong transcription	Fetal Stomach	stomach

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