Variant report

Variant	rs11648225
Chromosome Location	chr16:48525532-48525533
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1001872	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11076569	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11641936	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11643514	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11644887	0.80[ASN][1000 genomes]
rs11865776	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1566466	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1566467	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1948713	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2062553	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2062554	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2062555	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2088753	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2088754	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4785244	0.80[ASN][1000 genomes]
rs4785520	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4785521	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55745119	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56207849	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6500390	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7184700	0.80[ASN][1000 genomes]
rs7189631	0.83[EUR][1000 genomes]
rs7194822	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7198215	0.82[ASN][1000 genomes]
rs7198420	0.80[ASN][1000 genomes]
rs7202422	0.83[AMR][1000 genomes]
rs7202699	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7203475	0.82[ASN][1000 genomes]
rs7206781	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8046716	0.84[ASN][1000 genomes]
rs8052026	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8054389	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8054696	0.82[ASN][1000 genomes]
rs8056201	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8056346	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8057027	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8063059	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9888862	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9889065	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9889067	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9921402	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9923092	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9925108	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9925138	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9926683	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9933892	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9937129	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9939368	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9939554	0.90[EUR][1000 genomes]
rs9940599	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9941289	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1061316	chr16:48264175-48594219	Weak transcription Strong transcription Bivalent Enhancer Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	esv1800739	chr16:48418505-48560315	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription 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	34 gene(s)	inside rSNPs	diseases
3	nsv428658	chr16:48438656-48587750	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	esv1817281	chr16:48509311-48537421	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	esv1842977	chr16:48509311-48537421	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	esv1849228	chr16:48509311-48537421	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv1065358	chr16:48513824-48554254	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 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	chr16:48524200-48526000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr16:48524600-48526200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr16:48524600-48526200	Enhancers	Brain Inferior Temporal Lobe	brain
4	chr16:48524600-48526800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr16:48524800-48526200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr16:48524800-48526400	Enhancers	Brain Hippocampus Middle	brain
7	chr16:48524800-48526400	Enhancers	Brain Substantia Nigra	brain
8	chr16:48525000-48525600	Enhancers	Brain Cingulate Gyrus	brain
9	chr16:48525000-48525800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr16:48525000-48525800	Enhancers	Breast Myoepithelial Primary Cells	Breast
11	chr16:48525000-48525800	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr16:48525000-48526200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr16:48525000-48526200	Enhancers	Fetal Stomach	stomach
14	chr16:48525000-48526400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr16:48525000-48526400	Enhancers	Brain Anterior Caudate	brain
16	chr16:48525000-48527000	Enhancers	Placenta	Placenta
17	chr16:48525200-48525600	Bivalent Enhancer	Muscle Satellite Cultured Cells	--
18	chr16:48525200-48525600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr16:48525200-48525600	Enhancers	Ovary	ovary
20	chr16:48525200-48526000	Enhancers	Hela-S3	cervix
21	chr16:48525200-48526200	Enhancers	Adipose Nuclei	Adipose
22	chr16:48525200-48526400	Enhancers	Fetal Lung	lung
23	chr16:48525400-48525600	Enhancers	Gastric	stomach
24	chr16:48525400-48525600	Enhancers	Sigmoid Colon	Sigmoid Colon
25	chr16:48525400-48525600	Enhancers	HSMMtube	muscle
26	chr16:48525400-48525800	Enhancers	Fetal Intestine Small	intestine
27	chr16:48525400-48525800	Enhancers	Osteobl	bone
28	chr16:48525400-48526000	Enhancers	Colon Smooth Muscle	Colon
29	chr16:48525400-48528400	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr16:48525400-48532200	Weak transcription	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links