Variant report

Variant	rs28482298
Chromosome Location	chr4:53463724-53463725
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10000311	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10001085	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10001370	0.94[ASN][1000 genomes]
rs10001387	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10002261	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10003396	0.81[ASN][1000 genomes]
rs10010306	1.00[ASN][1000 genomes]
rs10012676	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10014752	0.93[ASN][1000 genomes]
rs10014850	0.87[ASN][1000 genomes]
rs10020568	1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs10021143	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10023867	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10027906	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10028085	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10028755	1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs10029145	1.00[ASN][1000 genomes]
rs10031386	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10032700	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10033218	1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10471216	0.93[ASN][1000 genomes]
rs13434726	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs13435157	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs28376189	1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs28379922	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs28380682	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28396506	1.00[AMR][1000 genomes]
rs28402205	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs28411005	1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs28412170	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28430452	0.93[ASN][1000 genomes]
rs28451750	1.00[ASN][1000 genomes]
rs28475600	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28478374	1.00[AMR][1000 genomes]
rs28503210	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28565016	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28588481	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28590396	0.93[ASN][1000 genomes]
rs28619184	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28644292	1.00[ASN][1000 genomes]
rs28654693	1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs28660550	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs28660571	0.93[ASN][1000 genomes]
rs28672279	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28694544	1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs28721897	0.93[ASN][1000 genomes]
rs28722174	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28784684	0.93[ASN][1000 genomes]
rs28825181	0.97[ASN][1000 genomes]
rs28825412	0.93[ASN][1000 genomes]
rs28849759	1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs28852068	0.93[ASN][1000 genomes]
rs6830833	0.93[ASN][1000 genomes]
rs7673679	0.90[ASN][1000 genomes]
rs9990686	0.93[ASN][1000 genomes]
rs9994643	0.93[ASN][1000 genomes]
rs9997863	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv594201	chr4:52798624-53732445	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv482581	chr4:53310749-53480710	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv1000931	chr4:53420849-53689319	Active TSS Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	nsv537093	chr4:53420849-53689319	Genic enhancers Weak transcription Active TSS Strong transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
5	nsv948860	chr4:53421172-53675549	Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
6	nsv1004889	chr4:53436500-54106281	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
7	nsv537094	chr4:53436500-54106281	Bivalent/Poised TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
8	esv2754049	chr4:53454272-53539672	Strong transcription Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
9	nsv524494	chr4:53459620-53582065	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:53451800-53501400	Weak transcription	Small Intestine	intestine
2	chr4:53453000-53485400	Weak transcription	Psoas Muscle	Psoas
3	chr4:53454000-53467800	Weak transcription	Brain Substantia Nigra	brain
4	chr4:53454800-53485400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr4:53455400-53473400	Weak transcription	Fetal Thymus	thymus
6	chr4:53455800-53466600	Weak transcription	Spleen	Spleen
7	chr4:53456000-53472800	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr4:53456000-53506400	Weak transcription	HUVEC	blood vessel
9	chr4:53456600-53482000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr4:53457600-53469800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr4:53458000-53470600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
12	chr4:53458200-53478800	Strong transcription	HUES64 Cell Line	embryonic stem cell
13	chr4:53458600-53472200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr4:53458800-53485000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr4:53459000-53483600	Weak transcription	K562	blood
16	chr4:53459200-53464000	Strong transcription	Fetal Intestine Large	intestine
17	chr4:53459200-53477400	Strong transcription	Fetal Muscle Trunk	muscle
18	chr4:53459400-53466400	Weak transcription	Brain Cingulate Gyrus	brain
19	chr4:53459400-53469600	Strong transcription	Adipose Nuclei	Adipose
20	chr4:53459600-53470800	Strong transcription	HUES48 Cell Line	embryonic stem cell
21	chr4:53459600-53477400	Strong transcription	HUES6 Cell Line	embryonic stem cell
22	chr4:53459800-53466400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr4:53460000-53466400	Weak transcription	Gastric	stomach
24	chr4:53460400-53469800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr4:53460600-53464800	Strong transcription	Skeletal Muscle Male	skeletal muscle
26	chr4:53460800-53466400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
27	chr4:53460800-53469400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr4:53460800-53476800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr4:53461000-53464600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr4:53461000-53465000	Strong transcription	Skeletal Muscle Female	skeletal muscle
31	chr4:53461000-53465200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr4:53461000-53465200	Strong transcription	Brain Inferior Temporal Lobe	brain
33	chr4:53461000-53465800	Strong transcription	Duodenum Smooth Muscle	Duodenum
34	chr4:53461000-53469200	Strong transcription	Liver	Liver
35	chr4:53461000-53470600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr4:53461000-53470800	Strong transcription	H1 Cell Line	embryonic stem cell
37	chr4:53461000-53470800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr4:53461000-53477000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
39	chr4:53461200-53464200	Strong transcription	Primary hematopoietic stem cells	blood
40	chr4:53461200-53464200	Strong transcription	Primary T helper cells fromperipheralblood	blood
41	chr4:53461200-53465200	Strong transcription	Rectal Mucosa Donor 31	rectum
42	chr4:53461200-53477600	Weak transcription	Placenta Amnion	Placenta Amnion
43	chr4:53461200-53478800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr4:53461400-53464200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr4:53461400-53465200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr4:53461400-53471200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr4:53461400-53481800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
48	chr4:53461400-53488200	Weak transcription	NHDF-Ad	bronchial
49	chr4:53461600-53477600	Weak transcription	Colonic Mucosa	Colon
50	chr4:53461600-53481600	Weak transcription	Pancreatic Islets	Pancreatic Islet

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