Variant report

Variant	rs872475
Chromosome Location	chr15:71998811-71998812
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11858936	0.94[ASN][1000 genomes]
rs12437539	0.94[ASN][1000 genomes]
rs12915432	0.94[ASN][1000 genomes]
rs1501421	0.94[ASN][1000 genomes]
rs1604334	0.97[ASN][1000 genomes]
rs16953738	1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs16956124	0.81[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs16956129	1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs16956157	0.85[JPT][hapmap]
rs2047685	0.90[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[ASN][1000 genomes]
rs2047690	0.94[ASN][1000 genomes]
rs2047691	0.94[ASN][1000 genomes]
rs2134064	1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2291278	1.00[ASW][hapmap]
rs2899771	1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4328388	0.94[ASN][1000 genomes]
rs4365247	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4776571	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4777437	0.81[AMR][1000 genomes]
rs4777442	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4777444	1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4777449	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs56790826	0.82[ASN][1000 genomes]
rs57091071	0.82[ASN][1000 genomes]
rs57931860	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs73430296	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs8036340	0.94[ASN][1000 genomes]
rs8041263	0.94[ASN][1000 genomes]
rs872472	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs972708	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904334	chr15:71737376-72177659	Strong transcription Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1036938	chr15:71948106-72272855	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Active TSS 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	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:71985200-71999000	Weak transcription	Fetal Stomach	stomach
2	chr15:71985200-71999000	Weak transcription	Pancreas	Pancrea
3	chr15:71985200-71999200	Weak transcription	Aorta	Aorta
4	chr15:71985200-72000400	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr15:71991000-72000400	Weak transcription	Fetal Intestine Small	intestine
6	chr15:71994400-71999200	Weak transcription	Fetal Lung	lung
7	chr15:71994800-71999400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr15:71996600-71999400	Weak transcription	Gastric	stomach
9	chr15:71997000-71999200	Enhancers	Hela-S3	cervix
10	chr15:71997000-71999800	Enhancers	Left Ventricle	heart
11	chr15:71997000-72001000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr15:71997000-72001400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr15:71997000-72001400	Enhancers	NHDF-Ad	bronchial
14	chr15:71997000-72003000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr15:71997200-72003000	Enhancers	NHLF	lung
16	chr15:71997400-72001400	Enhancers	Right Ventricle	heart
17	chr15:71997600-71999200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr15:71997800-72002000	Enhancers	Stomach Mucosa	stomach
19	chr15:71998000-71999000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr15:71998000-71999000	Weak transcription	Lung	lung
21	chr15:71998000-71999000	Weak transcription	Ovary	ovary
22	chr15:71998000-71999200	Weak transcription	Muscle Satellite Cultured Cells	--
23	chr15:71998000-71999200	Weak transcription	Colon Smooth Muscle	Colon
24	chr15:71998000-71999200	Weak transcription	Esophagus	oesophagus
25	chr15:71998000-71999400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr15:71998000-72000400	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr15:71998000-72001000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr15:71998000-72001200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr15:71998000-72009000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr15:71998000-72009200	Weak transcription	NHEK	skin
31	chr15:71998200-71999200	Weak transcription	Fetal Heart	heart
32	chr15:71998200-71999400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr15:71998400-71999000	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr15:71998600-71999200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr15:71998600-71999600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr15:71998600-72001200	Enhancers	Duodenum Smooth Muscle	Duodenum
37	chr15:71998600-72003200	Enhancers	Breast Myoepithelial Primary Cells	Breast
38	chr15:71998800-72001200	Enhancers	Small Intestine	intestine
39	chr15:71998800-72002600	Enhancers	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links