Variant report

Variant	rs28405315
Chromosome Location	chr4:15454759-15454760
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	chr4:15444346..15446758-chr4:15452590..15454838,2	MCF-7	breast:
2	chr4:15451138..15453425-chr4:15453445..15455847,2	K562	blood:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10004540	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10032808	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11942186	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11942959	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11946436	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13353624	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1468737	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16891867	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1861045	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1861046	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1861049	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1861050	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2192359	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2192360	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2192361	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2192362	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28448602	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28465445	0.85[ASN][1000 genomes]
rs28517424	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28697056	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3822297	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4698105	0.82[EUR][1000 genomes]
rs4698106	0.82[EUR][1000 genomes]
rs4698107	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4698108	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4698380	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4698381	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4698383	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4698384	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60487386	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61170754	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6814988	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6836616	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6837765	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs723299	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73235019	0.81[AMR][1000 genomes]
rs7656974	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7661435	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs971490	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9998722	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[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	esv3448986	chr4:14928802-15805558	Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	esv2757923	chr4:15444617-15749520	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv2759227	chr4:15444617-15749520	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:15438400-15458800	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr4:15438800-15471200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr4:15448400-15458800	Weak transcription	Primary T cells from cord blood	blood
4	chr4:15451800-15454800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr4:15451800-15454800	Enhancers	Primary monocytes fromperipheralblood	blood
6	chr4:15452200-15454800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr4:15452200-15454800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr4:15452200-15454800	Enhancers	Aorta	Aorta
9	chr4:15452400-15454800	Enhancers	HMEC	breast
10	chr4:15452600-15454800	Enhancers	Breast Myoepithelial Primary Cells	Breast
11	chr4:15452600-15454800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr4:15452600-15456600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr4:15453000-15458800	Weak transcription	Brain Hippocampus Middle	brain
14	chr4:15453400-15454800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr4:15453400-15455800	Enhancers	NHLF	lung
16	chr4:15453400-15456600	Weak transcription	Liver	Liver
17	chr4:15453400-15458200	Weak transcription	Primary hematopoietic stem cells	blood
18	chr4:15453400-15458400	Weak transcription	Primary B cells from cord blood	blood
19	chr4:15453400-15458600	Weak transcription	Left Ventricle	heart
20	chr4:15453600-15454800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr4:15453600-15454800	Enhancers	HSMM	muscle
22	chr4:15453600-15456600	Weak transcription	Ovary	ovary
23	chr4:15453600-15456600	Weak transcription	Psoas Muscle	Psoas
24	chr4:15453600-15456800	Weak transcription	Primary neutrophils fromperipheralblood	blood
25	chr4:15453600-15457600	Enhancers	NHDF-Ad	bronchial
26	chr4:15453600-15458400	Weak transcription	Spleen	Spleen
27	chr4:15453600-15458600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
28	chr4:15453600-15459000	Weak transcription	Brain Anterior Caudate	brain
29	chr4:15453600-15459000	Weak transcription	Fetal Muscle Leg	muscle
30	chr4:15453800-15454800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr4:15453800-15454800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr4:15453800-15454800	Enhancers	NH-A	brain
33	chr4:15453800-15454800	Enhancers	Osteobl	bone
34	chr4:15453800-15455800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr4:15453800-15458600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr4:15454000-15454800	Enhancers	A549	lung
37	chr4:15454000-15458400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr4:15454000-15458800	Weak transcription	Fetal Lung	lung
39	chr4:15454200-15456600	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr4:15454200-15456800	Weak transcription	Right Atrium	heart
41	chr4:15454200-15458600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr4:15454200-15458600	Weak transcription	Placenta Amnion	Placenta Amnion
43	chr4:15454200-15458800	Weak transcription	Rectal Smooth Muscle	rectum
44	chr4:15454200-15458800	Weak transcription	Stomach Mucosa	stomach
45	chr4:15454200-15459000	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr4:15454400-15454800	Enhancers	Muscle Satellite Cultured Cells	--
47	chr4:15454400-15456200	Weak transcription	Placenta	Placenta
48	chr4:15454400-15456800	Weak transcription	HSMMtube	muscle
49	chr4:15454400-15457200	Weak transcription	Stomach Smooth Muscle	stomach
50	chr4:15454400-15458800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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