Variant report

Variant	rs72972082
Chromosome Location	chr6:128651381-128651382
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 99 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:94)

rs_ID	r²[population]
rs11964875	0.98[EUR][1000 genomes]
rs11965122	0.98[EUR][1000 genomes]
rs11965141	0.98[EUR][1000 genomes]
rs11966128	0.98[EUR][1000 genomes]
rs1339189	0.91[EUR][1000 genomes]
rs1339196	1.00[EUR][1000 genomes]
rs1416517	0.89[EUR][1000 genomes]
rs1538498	1.00[EUR][1000 genomes]
rs1612415	0.81[EUR][1000 genomes]
rs17055564	0.98[EUR][1000 genomes]
rs17055574	1.00[EUR][1000 genomes]
rs17055596	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17055597	0.98[EUR][1000 genomes]
rs17055601	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17055604	0.98[EUR][1000 genomes]
rs17055608	0.98[EUR][1000 genomes]
rs17055611	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17055612	0.98[EUR][1000 genomes]
rs17055616	0.98[EUR][1000 genomes]
rs17055617	0.98[EUR][1000 genomes]
rs17055618	0.98[EUR][1000 genomes]
rs17055619	0.98[EUR][1000 genomes]
rs17055628	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17055630	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17055679	1.00[EUR][1000 genomes]
rs17055689	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17055706	0.91[EUR][1000 genomes]
rs17055717	0.89[EUR][1000 genomes]
rs17055719	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17055727	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17055733	0.91[EUR][1000 genomes]
rs17343887	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17353545	0.89[EUR][1000 genomes]
rs17430131	0.83[EUR][1000 genomes]
rs17430452	1.00[EUR][1000 genomes]
rs17456343	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17456385	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17456601	1.00[EUR][1000 genomes]
rs1768360	0.81[EUR][1000 genomes]
rs2027311	0.98[EUR][1000 genomes]
rs4267969	1.00[EUR][1000 genomes]
rs4466261	0.98[EUR][1000 genomes]
rs55700986	0.85[EUR][1000 genomes]
rs55969073	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56095177	0.94[EUR][1000 genomes]
rs56241890	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57318936	1.00[EUR][1000 genomes]
rs59132771	1.00[EUR][1000 genomes]
rs60915390	0.81[EUR][1000 genomes]
rs6420738	0.91[EUR][1000 genomes]
rs6913718	0.98[EUR][1000 genomes]
rs6931769	0.98[EUR][1000 genomes]
rs6933821	0.83[EUR][1000 genomes]
rs72967021	0.85[EUR][1000 genomes]
rs72967026	1.00[EUR][1000 genomes]
rs72967039	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72967046	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72967053	0.98[EUR][1000 genomes]
rs72967056	0.98[EUR][1000 genomes]
rs72967058	1.00[EUR][1000 genomes]
rs72967074	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72967078	0.98[EUR][1000 genomes]
rs72967081	0.98[EUR][1000 genomes]
rs72967087	0.98[EUR][1000 genomes]
rs72967090	0.98[EUR][1000 genomes]
rs72969051	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72969054	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72969059	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72969061	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72969063	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72969067	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72969070	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72969074	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72969075	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72969078	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72969081	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72969088	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72969090	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72969093	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72969097	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72969098	0.98[EUR][1000 genomes]
rs72971103	1.00[EUR][1000 genomes]
rs72971104	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72972078	0.91[EUR][1000 genomes]
rs72972084	1.00[EUR][1000 genomes]
rs72972086	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72972090	0.89[EUR][1000 genomes]
rs72972091	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7771630	0.98[EUR][1000 genomes]
rs7773248	0.89[EUR][1000 genomes]
rs7776405	1.00[EUR][1000 genomes]
rs9321114	0.98[EUR][1000 genomes]
rs9375562	0.86[EUR][1000 genomes]
rs9402035	0.94[EUR][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	nsv1033443	chr6:128306654-128899203	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv538440	chr6:128306654-128899203	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv886649	chr6:128399657-128808054	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1020071	chr6:128579774-129048919	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv538441	chr6:128579774-129048919	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128632000-128658000	Weak transcription	Ovary	ovary
2	chr6:128632200-128665200	Weak transcription	Gastric	stomach
3	chr6:128635600-128672000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr6:128635800-128654200	Weak transcription	Liver	Liver
5	chr6:128639000-128660600	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr6:128639000-128660800	Weak transcription	Small Intestine	intestine
7	chr6:128639800-128659000	Weak transcription	Fetal Stomach	stomach
8	chr6:128640000-128653200	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr6:128640000-128660600	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr6:128641400-128661400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr6:128641800-128657600	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr6:128642000-128657000	Weak transcription	HepG2	liver
13	chr6:128643400-128659000	Weak transcription	NHEK	skin
14	chr6:128643400-128660600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr6:128643600-128653400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr6:128645000-128654800	Weak transcription	Brain Cingulate Gyrus	brain
17	chr6:128646200-128657000	Weak transcription	Brain Anterior Caudate	brain
18	chr6:128648800-128654400	Weak transcription	A549	lung
19	chr6:128649200-128661400	Weak transcription	Pancreas	Pancrea
20	chr6:128649200-128665600	Weak transcription	Left Ventricle	heart
21	chr6:128649400-128654600	Weak transcription	Fetal Thymus	thymus
22	chr6:128649400-128658600	Weak transcription	Fetal Lung	lung
23	chr6:128649400-128659800	Weak transcription	Fetal Intestine Small	intestine
24	chr6:128649400-128660800	Weak transcription	HSMMtube	muscle
25	chr6:128649400-128671800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr6:128649400-128678600	Weak transcription	HSMM	muscle
27	chr6:128649600-128654800	Weak transcription	Pancreatic Islets	Pancreatic Islet
28	chr6:128649600-128661600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr6:128650600-128651400	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr6:128650600-128651800	Enhancers	Brain Substantia Nigra	brain
31	chr6:128650600-128652400	Enhancers	Colon Smooth Muscle	Colon
32	chr6:128651000-128656400	Weak transcription	Rectal Smooth Muscle	rectum
33	chr6:128651000-128660400	Weak transcription	Stomach Smooth Muscle	stomach
34	chr6:128651200-128657800	Weak transcription	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links