Variant report

Variant	rs3132612
Chromosome Location	chr6:30539438-30539439
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:16)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:16 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:210404553..210406882-chr6:30538400..30541136,2	MCF-7	breast:
2	chr11:62606869..62607642-chr6:30538955..30539572,2	Hela-S3	cervix:
3	chr6:30537301..30541414-chr6:30578056..30586798,20	MCF-7	breast:
4	chr11:34073196..34074070-chr6:30539019..30539630,2	HCT-116	colon:
5	chr6:30538999..30540963-chr6:30688916..30690569,2	MCF-7	breast:
6	chr6:30537121..30539529-chr6:30708411..30710426,2	MCF-7	breast:
7	chr6:30482719..30486624-chr6:30535507..30541696,8	K562	blood:
8	chr6:30537817..30539494-chr6:30709502..30712304,2	K562	blood:
9	chr6:30538279..30540737-chr6:30682674..30685473,2	K562	blood:
10	chr6:30455992..30459496-chr6:30536691..30539449,3	K562	blood:
11	chr6:30293760..30295440-chr6:30537692..30539464,2	K562	blood:
12	chr6:30538401..30540196-chr6:30850753..30853451,2	MCF-7	breast:
13	chr6:30538571..30540910-chr6:30846758..30849178,2	MCF-7	breast:
14	chr6:30538716..30541122-chr6:30550002..30551638,2	MCF-7	breast:
15	chr6:30483910..30486517-chr6:30539369..30541462,3	K562	blood:
16	chr6:30538562..30540598-chr6:30686462..30688413,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000204569	Chromatin interaction
ENSG00000204580	Chromatin interaction
ENSG00000137337	Chromatin interaction
ENSG00000133316	Chromatin interaction
ENSG00000203706	Chromatin interaction
ENSG00000231074	Chromatin interaction
ENSG00000204599	Chromatin interaction
ENSG00000235781	Chromatin interaction
ENSG00000082497	Chromatin interaction
ENSG00000196230	Chromatin interaction
ENSG00000222894	Chromatin interaction
ENSG00000204592	Chromatin interaction
ENSG00000272273	Chromatin interaction
ENSG00000137312	Chromatin interaction
ENSG00000270604	Chromatin interaction
ENSG00000204574	Chromatin interaction
ENSG00000204568	Chromatin interaction
ENSG00000135387	Chromatin interaction

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs1058318	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1264432	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1264437	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1264438	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1264439	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1264440	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1264448	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1264456	0.86[EUR][1000 genomes]
rs1362119	0.86[EUR][1000 genomes]
rs1468079	0.84[EUR][1000 genomes]
rs2023608	0.84[EUR][1000 genomes]
rs2023609	0.84[EUR][1000 genomes]
rs2074503	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2074504	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2074505	0.86[EUR][1000 genomes]
rs2252745	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2269709	0.86[EUR][1000 genomes]
rs2269710	0.83[EUR][1000 genomes]
rs2429655	0.84[EUR][1000 genomes]
rs2516639	0.88[EUR][1000 genomes]
rs2516641	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2516642	0.87[EUR][1000 genomes]
rs2516643	0.87[EUR][1000 genomes]
rs2516644	0.86[EUR][1000 genomes]
rs2516646	0.86[EUR][1000 genomes]
rs2516648	0.84[EUR][1000 genomes]
rs2516649	0.85[EUR][1000 genomes]
rs2516656	0.84[EUR][1000 genomes]
rs2516662	0.84[EUR][1000 genomes]
rs2524221	0.84[EUR][1000 genomes]
rs2524223	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2524224	0.83[EUR][1000 genomes]
rs2524226	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2534802	0.83[EUR][1000 genomes]
rs2534803	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2534804	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2534805	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2534807	0.84[EUR][1000 genomes]
rs2534808	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2534810	0.83[EUR][1000 genomes]
rs2534813	0.84[EUR][1000 genomes]
rs2534814	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2534815	0.86[EUR][1000 genomes]
rs2534817	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2534820	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2534821	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2534823	0.85[EUR][1000 genomes]
rs2534824	0.84[EUR][1000 genomes]
rs2534825	0.83[EUR][1000 genomes]
rs2844713	0.84[EUR][1000 genomes]
rs2844714	0.84[EUR][1000 genomes]
rs2844715	0.84[EUR][1000 genomes]
rs2844717	0.83[EUR][1000 genomes]
rs2844718	0.84[EUR][1000 genomes]
rs2844720	0.84[EUR][1000 genomes]
rs2844723	0.85[EUR][1000 genomes]
rs2844724	0.84[EUR][1000 genomes]
rs3094718	0.86[EUR][1000 genomes]
rs3130039	0.85[EUR][1000 genomes]
rs3130041	0.87[EUR][1000 genomes]
rs3130043	0.81[EUR][1000 genomes]
rs3130240	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3130242	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3130243	0.87[EUR][1000 genomes]
rs3130244	0.81[EUR][1000 genomes]
rs3132609	0.82[EUR][1000 genomes]
rs3132613	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3132614	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9262082	0.84[EUR][1000 genomes]
rs9262118	0.81[EUR][1000 genomes]
rs975195	0.84[EUR][1000 genomes]
rs996588	0.84[EUR][1000 genomes]
rs996589	0.83[EUR][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	nsv1025667	chr6:30292845-30638066	Flanking Active TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	825 gene(s)	inside rSNPs	diseases
2	esv3519970	chr6:30382942-31378788	Genic enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1030 gene(s)	inside rSNPs	diseases
3	esv3519971	chr6:30382942-31378788	Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1030 gene(s)	inside rSNPs	diseases
4	nsv601481	chr6:30422632-31284253	Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1012 gene(s)	inside rSNPs	diseases
5	esv3430377	chr6:30443802-30814426	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	967 gene(s)	inside rSNPs	diseases
6	nsv884086	chr6:30462084-30672757	Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	798 gene(s)	inside rSNPs	diseases
7	nsv884091	chr6:30526026-30590646	Transcr. at gene 5' and 3' Weak transcription Genic enhancers Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	776 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30538000-30539600	Active TSS	Rectal Smooth Muscle	rectum
2	chr6:30538000-30539600	Active TSS	Right Ventricle	heart
3	chr6:30538000-30539800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr6:30538000-30540000	Active TSS	HUES48 Cell Line	embryonic stem cell
5	chr6:30538000-30540000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr6:30538200-30539600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr6:30538200-30539600	Active TSS	NH-A	brain
8	chr6:30538200-30540000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr6:30538200-30540000	Active TSS	Aorta	Aorta
10	chr6:30538400-30539600	Active TSS	Brain Inferior Temporal Lobe	brain
11	chr6:30538400-30539600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
12	chr6:30538400-30539600	Active TSS	Fetal Muscle Trunk	muscle
13	chr6:30538400-30539600	Active TSS	Left Ventricle	heart
14	chr6:30538400-30539600	Active TSS	Placenta Amnion	Placenta Amnion
15	chr6:30538400-30539800	Active TSS	ES-I3 Cell Line	embryonic stem cell
16	chr6:30538400-30539800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr6:30538400-30539800	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr6:30538400-30539800	Active TSS	Brain Angular Gyrus	brain
19	chr6:30538400-30539800	Active TSS	Duodenum Smooth Muscle	Duodenum
20	chr6:30538400-30539800	Active TSS	Pancreatic Islets	Pancreatic Islet
21	chr6:30538400-30540000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
22	chr6:30538400-30540000	Active TSS	H1 Cell Line	embryonic stem cell
23	chr6:30538400-30540000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr6:30538400-30540000	Active TSS	Breast Myoepithelial Primary Cells	Breast
25	chr6:30538400-30540000	Active TSS	Muscle Satellite Cultured Cells	--
26	chr6:30538400-30540000	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
27	chr6:30538400-30540000	Active TSS	Colonic Mucosa	Colon
28	chr6:30538400-30540000	Active TSS	Ovary	ovary
29	chr6:30538400-30540000	Active TSS	A549	lung
30	chr6:30538400-30540200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr6:30538400-30540200	Active TSS	Psoas Muscle	Psoas
32	chr6:30538600-30539600	Transcr. at gene 5' and 3'	Primary T helper naive cells fromperipheralblood	blood
33	chr6:30538600-30539600	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
34	chr6:30538600-30539600	Active TSS	Primary T killer naive cells fromperipheralblood	blood
35	chr6:30538600-30539600	Active TSS	Liver	Liver
36	chr6:30538600-30539600	Active TSS	Brain Anterior Caudate	brain
37	chr6:30538600-30539600	Active TSS	Brain Cingulate Gyrus	brain
38	chr6:30538600-30539600	Active TSS	Fetal Adrenal Gland	Adrenal Gland
39	chr6:30538600-30539600	Active TSS	Fetal Heart	heart
40	chr6:30538600-30539600	Active TSS	Rectal Mucosa Donor 29	rectum
41	chr6:30538600-30539600	Active TSS	Thymus	Thymus
42	chr6:30538600-30539600	Active TSS	Osteobl	bone
43	chr6:30538600-30539800	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
44	chr6:30538600-30539800	Active TSS	Colon Smooth Muscle	Colon
45	chr6:30538600-30539800	Active TSS	Duodenum Mucosa	Duodenum
46	chr6:30538600-30539800	Active TSS	Fetal Kidney	kidney
47	chr6:30538600-30539800	Active TSS	Fetal Lung	lung
48	chr6:30538600-30539800	Active TSS	Fetal Stomach	stomach
49	chr6:30538600-30539800	Active TSS	Lung	lung
50	chr6:30538600-30539800	Active TSS	Sigmoid Colon	Sigmoid Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links