Variant report

Variant	rs12660531
Chromosome Location	chr6:144634333-144634334
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 131 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:126)

rs_ID	r²[population]
rs12660406	1.00[EUR][1000 genomes]
rs12660513	1.00[EUR][1000 genomes]
rs12660596	1.00[EUR][1000 genomes]
rs12661781	1.00[EUR][1000 genomes]
rs12661969	1.00[EUR][1000 genomes]
rs12662267	1.00[EUR][1000 genomes]
rs12662696	1.00[EUR][1000 genomes]
rs12662724	1.00[EUR][1000 genomes]
rs12662786	1.00[EUR][1000 genomes]
rs12662872	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12662904	1.00[EUR][1000 genomes]
rs12663172	1.00[EUR][1000 genomes]
rs12663380	0.83[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12663605	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs12663851	1.00[EUR][1000 genomes]
rs12664200	1.00[EUR][1000 genomes]
rs12664245	1.00[EUR][1000 genomes]
rs12664298	1.00[EUR][1000 genomes]
rs12664304	1.00[EUR][1000 genomes]
rs12665589	1.00[EUR][1000 genomes]
rs12665850	0.83[JPT][hapmap];1.00[EUR][1000 genomes]
rs17073442	1.00[EUR][1000 genomes]
rs17073463	1.00[EUR][1000 genomes]
rs17073482	1.00[EUR][1000 genomes]
rs17073498	1.00[EUR][1000 genomes]
rs17073506	1.00[EUR][1000 genomes]
rs17073524	1.00[EUR][1000 genomes]
rs17073528	1.00[EUR][1000 genomes]
rs17073529	1.00[EUR][1000 genomes]
rs17073544	1.00[EUR][1000 genomes]
rs17073571	1.00[EUR][1000 genomes]
rs17073580	1.00[EUR][1000 genomes]
rs17073598	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs17073602	1.00[EUR][1000 genomes]
rs17073610	1.00[EUR][1000 genomes]
rs17073623	1.00[EUR][1000 genomes]
rs17073629	1.00[GIH][hapmap];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17073631	1.00[EUR][1000 genomes]
rs17073672	0.83[JPT][hapmap];1.00[EUR][1000 genomes]
rs17073678	1.00[EUR][1000 genomes]
rs17840301	1.00[EUR][1000 genomes]
rs1998367	1.00[EUR][1000 genomes]
rs34140249	1.00[EUR][1000 genomes]
rs34502493	1.00[EUR][1000 genomes]
rs35325795	1.00[EUR][1000 genomes]
rs35681372	1.00[EUR][1000 genomes]
rs36007040	1.00[EUR][1000 genomes]
rs3811097	1.00[EUR][1000 genomes]
rs4301321	1.00[EUR][1000 genomes]
rs4896714	1.00[EUR][1000 genomes]
rs4896715	1.00[EUR][1000 genomes]
rs4896717	1.00[EUR][1000 genomes]
rs55684976	1.00[EUR][1000 genomes]
rs56820385	1.00[EUR][1000 genomes]
rs56897751	1.00[EUR][1000 genomes]
rs57069580	1.00[EUR][1000 genomes]
rs57380483	1.00[EUR][1000 genomes]
rs57485302	1.00[EUR][1000 genomes]
rs57592921	1.00[EUR][1000 genomes]
rs57679521	1.00[EUR][1000 genomes]
rs57704478	1.00[EUR][1000 genomes]
rs57712072	1.00[EUR][1000 genomes]
rs57751197	1.00[EUR][1000 genomes]
rs58084770	1.00[EUR][1000 genomes]
rs58396690	1.00[EUR][1000 genomes]
rs58590469	1.00[EUR][1000 genomes]
rs58847604	1.00[EUR][1000 genomes]
rs58849686	1.00[EUR][1000 genomes]
rs58857193	1.00[EUR][1000 genomes]
rs59003501	1.00[EUR][1000 genomes]
rs59612420	1.00[EUR][1000 genomes]
rs59614628	1.00[EUR][1000 genomes]
rs59718967	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59803839	1.00[EUR][1000 genomes]
rs59810504	1.00[EUR][1000 genomes]
rs59936141	1.00[EUR][1000 genomes]
rs60053855	1.00[EUR][1000 genomes]
rs60188478	1.00[EUR][1000 genomes]
rs60234245	1.00[EUR][1000 genomes]
rs60345197	1.00[EUR][1000 genomes]
rs60439721	1.00[EUR][1000 genomes]
rs60484357	1.00[EUR][1000 genomes]
rs60559108	1.00[EUR][1000 genomes]
rs60634096	1.00[EUR][1000 genomes]
rs60661533	0.80[ASN][1000 genomes]
rs60762289	1.00[EUR][1000 genomes]
rs60811448	1.00[EUR][1000 genomes]
rs60857439	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs60859726	1.00[EUR][1000 genomes]
rs61087655	1.00[EUR][1000 genomes]
rs61211447	1.00[EUR][1000 genomes]
rs61249035	1.00[EUR][1000 genomes]
rs61327932	1.00[EUR][1000 genomes]
rs6914753	1.00[EUR][1000 genomes]
rs6915621	1.00[EUR][1000 genomes]
rs6916795	1.00[GIH][hapmap]
rs6917261	1.00[EUR][1000 genomes]
rs6922109	1.00[EUR][1000 genomes]
rs6922608	1.00[EUR][1000 genomes]
rs6927798	1.00[EUR][1000 genomes]
rs73586980	0.85[AFR][1000 genomes]
rs73586986	0.96[AFR][1000 genomes]
rs73588908	0.92[AFR][1000 genomes]
rs73589002	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73591113	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73594934	1.00[EUR][1000 genomes]
rs73780508	1.00[EUR][1000 genomes]
rs73780540	1.00[EUR][1000 genomes]
rs7741466	1.00[EUR][1000 genomes]
rs7745240	1.00[EUR][1000 genomes]
rs7745998	1.00[GIH][hapmap]
rs7747486	1.00[EUR][1000 genomes]
rs7751351	1.00[EUR][1000 genomes]
rs7751876	1.00[EUR][1000 genomes]
rs7754883	1.00[EUR][1000 genomes]
rs7766883	1.00[EUR][1000 genomes]
rs7768531	1.00[EUR][1000 genomes]
rs7774175	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9321969	1.00[GIH][hapmap]
rs9484874	1.00[EUR][1000 genomes]
rs9496932	1.00[EUR][1000 genomes]
rs9496935	0.83[JPT][hapmap];1.00[EUR][1000 genomes]
rs9496938	1.00[EUR][1000 genomes]
rs9496944	1.00[EUR][1000 genomes]
rs9496948	1.00[GIH][hapmap]
rs9496955	1.00[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	nsv830831	chr6:144501371-144649509	Bivalent/Poised TSS Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv830832	chr6:144572378-144759023	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv2422260	chr6:144574591-144731630	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1031253	chr6:144599055-144883013	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv538461	chr6:144599055-144883013	Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144609200-144641600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr6:144616400-144648000	Weak transcription	NHEK	skin
3	chr6:144617200-144636400	Weak transcription	A549	lung
4	chr6:144619200-144634600	Weak transcription	Colon Smooth Muscle	Colon
5	chr6:144619800-144634600	Weak transcription	Brain Hippocampus Middle	brain
6	chr6:144622400-144637000	Genic enhancers	HepG2	liver
7	chr6:144624200-144641400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr6:144624200-144641600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:144624400-144648000	Weak transcription	HMEC	breast
10	chr6:144627000-144634600	Weak transcription	Small Intestine	intestine
11	chr6:144627400-144634600	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr6:144627400-144641800	Weak transcription	Thymus	Thymus
13	chr6:144627600-144634600	Weak transcription	Aorta	Aorta
14	chr6:144627600-144634600	Weak transcription	Esophagus	oesophagus
15	chr6:144627600-144634600	Weak transcription	Spleen	Spleen
16	chr6:144627600-144636400	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr6:144627600-144643400	Weak transcription	NH-A	brain
18	chr6:144627600-144645800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
19	chr6:144627800-144634600	Weak transcription	Fetal Thymus	thymus
20	chr6:144629200-144634400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr6:144629200-144634400	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr6:144629200-144635200	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr6:144629400-144641800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr6:144630200-144648400	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr6:144630400-144634600	Weak transcription	Gastric	stomach
26	chr6:144630600-144648200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr6:144630800-144634600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr6:144630800-144634600	Weak transcription	Placenta	Placenta
29	chr6:144630800-144634800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr6:144631000-144634600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr6:144631000-144635600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr6:144631000-144636400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr6:144631000-144636400	Weak transcription	Primary hematopoietic stem cells	blood
34	chr6:144631200-144634400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr6:144631200-144634600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
36	chr6:144631200-144634600	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr6:144631200-144634600	Weak transcription	Fetal Stomach	stomach
38	chr6:144631200-144634600	Weak transcription	Rectal Smooth Muscle	rectum
39	chr6:144631200-144636400	Weak transcription	Fetal Muscle Trunk	muscle
40	chr6:144631200-144638000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr6:144631200-144638600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr6:144631400-144634400	Weak transcription	Stomach Smooth Muscle	stomach
43	chr6:144631400-144634600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr6:144631400-144635400	Weak transcription	HSMMtube	muscle
45	chr6:144631400-144636200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr6:144631400-144636400	Weak transcription	Rectal Mucosa Donor 29	rectum
47	chr6:144631400-144637000	Weak transcription	Fetal Intestine Large	intestine
48	chr6:144631600-144640200	Weak transcription	Monocytes-CD14+_RO01746	blood
49	chr6:144631600-144641600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr6:144631800-144634600	Enhancers	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links