Variant report

Variant	rs2302855
Chromosome Location	chr12:47182279-47182280
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11183642	0.81[EUR][1000 genomes]
rs17097286	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17097341	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17097368	0.81[EUR][1000 genomes]
rs2075335	1.00[CEU][hapmap];0.82[CHB][hapmap];0.85[CHD][hapmap];0.81[ASN][1000 genomes]
rs2079787	0.87[MEX][hapmap]
rs2109125	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.92[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2287473	1.00[CEU][hapmap];0.81[ASN][1000 genomes]
rs2429465	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2429466	1.00[CEU][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2429467	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.85[TSI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2429470	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2429471	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2465586	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2897981	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3764027	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57646407	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs57760966	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73283973	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049525	chr12:46721742-47264172	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
2	nsv541486	chr12:46721742-47264172	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
3	esv1845143	chr12:47051076-47431496	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv826361	chr12:47159545-47200894	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:47164200-47187800	Genic enhancers	Liver	Liver
2	chr12:47165200-47187200	Weak transcription	Fetal Kidney	kidney
3	chr12:47169400-47185200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr12:47175600-47183000	Weak transcription	Aorta	Aorta
5	chr12:47177400-47182400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr12:47177800-47182400	Enhancers	NHDF-Ad	bronchial
7	chr12:47178400-47183400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr12:47178600-47182600	Enhancers	HSMMtube	muscle
9	chr12:47179000-47189800	Weak transcription	Fetal Lung	lung
10	chr12:47179400-47182400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr12:47180000-47182400	Enhancers	NH-A	brain
12	chr12:47180000-47182600	Enhancers	NHEK	skin
13	chr12:47180200-47183000	Enhancers	HUVEC	blood vessel
14	chr12:47180600-47183000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr12:47180800-47182400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr12:47180800-47182400	Enhancers	Placenta	Placenta
17	chr12:47181000-47194200	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr12:47181400-47182400	Enhancers	NHLF	lung
19	chr12:47181400-47182600	Enhancers	Osteobl	bone
20	chr12:47181400-47183000	Enhancers	Muscle Satellite Cultured Cells	--
21	chr12:47181400-47184600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr12:47181400-47185400	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr12:47181600-47182600	Enhancers	HepG2	liver
24	chr12:47181800-47182400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr12:47181800-47182400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr12:47181800-47183400	Genic enhancers	HSMM	muscle
27	chr12:47181800-47185600	Weak transcription	Pancreas	Pancrea
28	chr12:47182000-47184000	Enhancers	GM12878-XiMat	blood
29	chr12:47182200-47182400	Enhancers	Psoas Muscle	Psoas
30	chr12:47182200-47182600	Active TSS	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links