Variant report

Variant	rs28561808
Chromosome Location	chr4:15453271-15453272
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	chr4:15451138..15453425-chr4:15453445..15455847,2	K562	blood:
2	chr4:15444346..15446758-chr4:15452590..15454838,2	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1024758	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1024759	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10461112	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1048037	0.83[EUR][1000 genomes]
rs10488970	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12233742	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13104095	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13114788	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13120744	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13123050	0.94[ASN][1000 genomes]
rs13123785	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13124984	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13129124	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13132007	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13132446	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13132604	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13138481	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13138554	0.93[ASN][1000 genomes]
rs16891929	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16891934	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16891939	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16891945	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17469724	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1990524	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2160046	0.85[EUR][1000 genomes]
rs2192355	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34028526	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34351987	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34352292	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34400909	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34496443	0.94[ASN][1000 genomes]
rs35301498	0.94[ASN][1000 genomes]
rs35465107	0.92[ASN][1000 genomes]
rs35539860	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35866305	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35971217	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3797006	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58479200	0.94[ASN][1000 genomes]
rs59684117	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61240629	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62289285	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs66696244	0.94[ASN][1000 genomes]
rs67391897	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs68012715	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs71601473	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs71601477	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs722235	0.93[ASN][1000 genomes]
rs7442554	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7661287	0.84[EUR][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:71 , 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	chr4:15451800-15453600	Enhancers	Primary hematopoietic stem cells short term culture	blood
5	chr4:15451800-15454800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr4:15451800-15454800	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr4:15452000-15453400	Enhancers	Primary B cells from cord blood	blood
8	chr4:15452000-15453600	Enhancers	Primary neutrophils fromperipheralblood	blood
9	chr4:15452000-15453800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr4:15452200-15453600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
11	chr4:15452200-15454200	Enhancers	Skeletal Muscle Male	skeletal muscle
12	chr4:15452200-15454800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr4:15452200-15454800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr4:15452200-15454800	Enhancers	Aorta	Aorta
15	chr4:15452400-15453400	Enhancers	Primary hematopoietic stem cells	blood
16	chr4:15452400-15453400	Enhancers	Liver	Liver
17	chr4:15452400-15453400	Enhancers	Left Ventricle	heart
18	chr4:15452400-15453400	Enhancers	Sigmoid Colon	Sigmoid Colon
19	chr4:15452400-15453600	Enhancers	Brain Anterior Caudate	brain
20	chr4:15452400-15453600	Enhancers	Esophagus	oesophagus
21	chr4:15452400-15453600	Enhancers	Fetal Muscle Leg	muscle
22	chr4:15452400-15453600	Enhancers	Lung	lung
23	chr4:15452400-15453600	Enhancers	Spleen	Spleen
24	chr4:15452400-15454200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr4:15452400-15454200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr4:15452400-15454200	Enhancers	Duodenum Smooth Muscle	Duodenum
27	chr4:15452400-15454200	Enhancers	Placenta Amnion	Placenta Amnion
28	chr4:15452400-15454200	Enhancers	Rectal Smooth Muscle	rectum
29	chr4:15452400-15454200	Enhancers	Right Ventricle	heart
30	chr4:15452400-15454200	Enhancers	Skeletal Muscle Female	skeletal muscle
31	chr4:15452400-15454400	Enhancers	Colon Smooth Muscle	Colon
32	chr4:15452400-15454400	Enhancers	Placenta	Placenta
33	chr4:15452400-15454400	Enhancers	HSMMtube	muscle
34	chr4:15452400-15454600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr4:15452400-15454600	Enhancers	Fetal Stomach	stomach
36	chr4:15452400-15454800	Enhancers	HMEC	breast
37	chr4:15452600-15453400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr4:15452600-15453600	Enhancers	Duodenum Mucosa	Duodenum
39	chr4:15452600-15453800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr4:15452600-15453800	Flanking Active TSS	Stomach Smooth Muscle	stomach
41	chr4:15452600-15453800	Enhancers	HUVEC	blood vessel
42	chr4:15452600-15454000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
43	chr4:15452600-15454200	Enhancers	Right Atrium	heart
44	chr4:15452600-15454200	Enhancers	Stomach Mucosa	stomach
45	chr4:15452600-15454400	Enhancers	Hela-S3	cervix
46	chr4:15452600-15454600	Enhancers	Adipose Nuclei	Adipose
47	chr4:15452600-15454800	Enhancers	Breast Myoepithelial Primary Cells	Breast
48	chr4:15452600-15454800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr4:15452600-15456600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
50	chr4:15452800-15453600	Flanking Active TSS	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links