Variant report

Variant	rs56255408
Chromosome Location	chr3:151074814-151074815
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:151074684..151076586-chr3:151078527..151080909,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs12106781	0.82[AFR][1000 genomes]
rs1463726	0.82[AFR][1000 genomes]
rs16846673	0.97[AFR][1000 genomes]
rs16863318	0.93[AFR][1000 genomes]
rs16863319	0.80[AFR][1000 genomes]
rs16863329	0.88[AFR][1000 genomes]
rs16863330	0.91[AFR][1000 genomes]
rs16863331	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56957964	0.81[AFR][1000 genomes]
rs58724507	0.82[AFR][1000 genomes]
rs60116140	0.81[AFR][1000 genomes]
rs60196145	0.93[AFR][1000 genomes]
rs61097635	0.82[AFR][1000 genomes]
rs73006514	0.92[AFR][1000 genomes]
rs73006546	0.86[AFR][1000 genomes]
rs73006560	0.82[AFR][1000 genomes]
rs73006580	0.88[AFR][1000 genomes]
rs73006586	0.81[AFR][1000 genomes]
rs73006587	0.81[AFR][1000 genomes]
rs73006595	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73008503	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73008505	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73008510	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73023047	0.88[AFR][1000 genomes]
rs73023066	0.88[AFR][1000 genomes]
rs73869016	0.93[AFR][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	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv829757	chr3:151044880-151226442	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:151063800-151099800	Weak transcription	Fetal Intestine Small	intestine
2	chr3:151064400-151089200	Weak transcription	NHLF	lung
3	chr3:151064600-151075200	Weak transcription	Adipose Nuclei	Adipose
4	chr3:151064600-151112400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr3:151065400-151079600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr3:151065600-151109400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:151065600-151115200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr3:151065800-151082200	Weak transcription	Fetal Thymus	thymus
9	chr3:151066400-151075000	Weak transcription	Brain Hippocampus Middle	brain
10	chr3:151067800-151083600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr3:151068000-151075000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr3:151068000-151078800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr3:151068000-151079600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr3:151068000-151082600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr3:151068400-151075000	Weak transcription	Aorta	Aorta
16	chr3:151069200-151078800	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr3:151069200-151078800	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr3:151069400-151129800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr3:151070400-151082800	Weak transcription	Primary hematopoietic stem cells	blood
20	chr3:151070600-151075000	Weak transcription	Primary B cells from peripheral blood	blood
21	chr3:151070800-151075000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr3:151072400-151080200	Weak transcription	Placenta	Placenta
23	chr3:151072400-151089800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr3:151072400-151091400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr3:151072600-151099800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr3:151072800-151075000	Weak transcription	Fetal Brain Female	brain
27	chr3:151073600-151075800	Enhancers	Primary monocytes fromperipheralblood	blood
28	chr3:151073600-151076200	Enhancers	Primary neutrophils fromperipheralblood	blood
29	chr3:151074200-151075800	Enhancers	Dnd41	blood
30	chr3:151074200-151082800	Weak transcription	H9 Cell Line	embryonic stem cell
31	chr3:151074200-151083800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
32	chr3:151074200-151084000	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr3:151074400-151075000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr3:151074400-151075400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
35	chr3:151074400-151076000	Enhancers	Primary B cells from cord blood	blood
36	chr3:151074600-151075000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr3:151074600-151075000	Enhancers	Osteobl	bone
38	chr3:151074600-151075600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr3:151074600-151075600	Enhancers	Muscle Satellite Cultured Cells	--
40	chr3:151074600-151076000	Enhancers	Cortex derived primary cultured neurospheres	brain
41	chr3:151074600-151078200	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr3:151074800-151075000	Enhancers	Brain Angular Gyrus	brain
43	chr3:151074800-151075200	Enhancers	Brain Substantia Nigra	brain
44	chr3:151074800-151075600	Enhancers	Brain Anterior Caudate	brain
45	chr3:151074800-151075800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
46	chr3:151074800-151076000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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