Variant report

Variant	rs35824953
Chromosome Location	chr13:50975876-50975877
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs12428189	0.83[AMR][1000 genomes]
rs12431131	0.83[AMR][1000 genomes]
rs1327644	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1359860	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs149846	0.80[ASN][1000 genomes]
rs17074346	0.88[ASN][1000 genomes]
rs17074358	0.83[ASN][1000 genomes]
rs1924372	0.82[ASN][1000 genomes]
rs1924373	0.82[ASN][1000 genomes]
rs201807	0.80[ASN][1000 genomes]
rs3116625	0.81[ASN][1000 genomes]
rs471315	0.94[ASN][1000 genomes]
rs56023535	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56075206	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58633776	0.95[ASN][1000 genomes]
rs61962133	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61962135	0.80[ASN][1000 genomes]
rs719103	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7327154	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7334326	0.91[ASN][1000 genomes]
rs7983762	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7996632	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8000329	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8000875	0.82[ASN][1000 genomes]
rs8000921	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9316495	0.91[ASN][1000 genomes]
rs9562961	0.83[AFR][1000 genomes]
rs9562962	0.81[ASN][1000 genomes]
rs9562963	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9562964	0.94[ASN][1000 genomes]
rs9562965	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9562966	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9562967	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9562968	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9562970	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9562972	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9562973	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9562974	0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9562975	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9562976	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9568395	0.83[AFR][1000 genomes]
rs9568397	0.83[ASN][1000 genomes]
rs9568398	0.83[ASN][1000 genomes]
rs9568399	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9568400	0.84[ASN][1000 genomes]
rs9568401	0.84[ASN][1000 genomes]
rs9568402	0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9568403	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9568404	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568405	0.92[ASN][1000 genomes]
rs9568406	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9568407	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9568408	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9568409	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9568410	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9568412	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9568413	0.91[ASN][1000 genomes]
rs9568414	0.83[ASN][1000 genomes]
rs9568415	0.83[ASN][1000 genomes]
rs9568416	0.84[ASN][1000 genomes]
rs9568417	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9634832	0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9634834	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1035151	chr13:50513535-51167850	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1254 gene(s)	inside rSNPs	diseases
2	esv2753964	chr13:50545399-51421199	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1256 gene(s)	inside rSNPs	diseases
3	esv2753492	chr13:50550081-51461720	Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1256 gene(s)	inside rSNPs	diseases
4	esv2752608	chr13:50550099-51054499	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1249 gene(s)	inside rSNPs	diseases
5	nsv832609	chr13:50946577-51065968	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:50965200-50977000	Weak transcription	Esophagus	oesophagus
2	chr13:50966600-50979800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr13:50968200-50985400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr13:50968200-50986600	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr13:50972000-50977200	Weak transcription	Gastric	stomach
6	chr13:50972200-50985400	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr13:50973200-50976200	Enhancers	Fetal Muscle Leg	muscle
8	chr13:50973200-50979200	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr13:50974200-50976000	Flanking Active TSS	Brain Hippocampus Middle	brain
10	chr13:50974200-50976400	Enhancers	NHLF	lung
11	chr13:50974200-50976600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr13:50974200-50976800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr13:50974200-50976800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr13:50974200-50976800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr13:50974200-50976800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr13:50974200-50976800	Enhancers	NH-A	brain
17	chr13:50974200-50977000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr13:50974200-50977000	Enhancers	Brain Germinal Matrix	brain
19	chr13:50974400-50976800	Enhancers	Muscle Satellite Cultured Cells	--
20	chr13:50974400-50977400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr13:50974400-50977400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr13:50974400-50977800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr13:50974600-50976000	Enhancers	Fetal Brain Female	brain
24	chr13:50974600-50976200	Enhancers	Breast Myoepithelial Primary Cells	Breast
25	chr13:50974600-50976200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr13:50974600-50976200	Enhancers	NHEK	skin
27	chr13:50974600-50976600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
28	chr13:50974600-50977600	Enhancers	Hela-S3	cervix
29	chr13:50974800-50976000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr13:50974800-50976000	Enhancers	Skeletal Muscle Female	skeletal muscle
31	chr13:50974800-50976800	Enhancers	HMEC	breast
32	chr13:50974800-50977000	Enhancers	Brain Cingulate Gyrus	brain
33	chr13:50974800-50977200	Weak transcription	Psoas Muscle	Psoas
34	chr13:50975200-50976000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr13:50975200-50976000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr13:50975200-50976000	Flanking Active TSS	HSMMtube	muscle
37	chr13:50975400-50976200	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
38	chr13:50975400-50977400	Weak transcription	Lung	lung
39	chr13:50975400-50985200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr13:50975400-50996200	Weak transcription	Right Ventricle	heart
41	chr13:50975600-50976000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr13:50975600-50976000	Flanking Active TSS	HSMM	muscle
43	chr13:50975600-50976000	Flanking Active TSS	Osteobl	bone
44	chr13:50975600-50976200	Enhancers	Brain Substantia Nigra	brain
45	chr13:50975600-50977000	Weak transcription	Fetal Thymus	thymus
46	chr13:50975600-50977000	Weak transcription	Placenta Amnion	Placenta Amnion
47	chr13:50975600-50977400	Enhancers	Pancreatic Islets	Pancreatic Islet
48	chr13:50975600-50978000	Enhancers	Fetal Heart	heart
49	chr13:50975600-50978600	Weak transcription	Stomach Smooth Muscle	stomach
50	chr13:50975600-50979000	Weak transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links