Variant report

Variant	rs6581452
Chromosome Location	chr12:62906488-62906489
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs10128830	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10128959	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10161549	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10219555	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10219765	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10735907	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10735909	0.86[AFR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10747963	0.93[ASN][1000 genomes]
rs10747965	0.89[ASN][1000 genomes]
rs10747966	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10784299	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10784302	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10784303	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10784306	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10784307	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10877851	0.91[ASN][1000 genomes]
rs10877860	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10877863	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10877865	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10877866	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10877868	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10877869	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10877872	0.84[ASN][1000 genomes]
rs10877873	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10877876	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10877878	0.85[EUR][1000 genomes]
rs10877880	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10877883	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10877885	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10877886	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10877887	0.82[ASN][1000 genomes]
rs11174493	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11174497	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11174507	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11174513	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11174520	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11174534	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11174538	0.84[ASN][1000 genomes]
rs11174539	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11174540	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11174541	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11174542	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11174550	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11495588	0.86[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs12227568	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12300696	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12305077	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12309683	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12357	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12371971	0.85[ASN][1000 genomes]
rs12371972	0.85[ASN][1000 genomes]
rs12578200	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12580048	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12581171	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12809279	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12810119	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12829103	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1498713	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2029937	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2047478	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2047479	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2141777	0.93[ASN][1000 genomes]
rs2220980	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35409044	0.82[EUR][1000 genomes]
rs4763021	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4763174	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4763177	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4763179	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4763180	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6581454	0.89[ASN][1000 genomes]
rs7134302	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7136993	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs71453871	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7294404	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7298782	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7302027	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7308021	0.80[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs7316612	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7957417	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7963657	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7975183	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7975560	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[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	nsv530690	chr12:62678463-62999462	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription 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 miRNA target site	54 gene(s)	inside rSNPs	diseases
2	nsv899158	chr12:62783967-62937259	Strong transcription Bivalent/Poised TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Enhancers Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv899159	chr12:62783967-62945245	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	nsv821671	chr12:62794304-63007964	Strong transcription ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
5	nsv469418	chr12:62893199-62959137	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
6	nsv559156	chr12:62893199-62959137	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
7	esv3390559	chr12:62902734-62920842	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:62863200-62937400	Weak transcription	Pancreas	Pancrea
2	chr12:62863400-62911000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr12:62863600-62926400	Weak transcription	Colon Smooth Muscle	Colon
4	chr12:62866600-62912400	Weak transcription	NHLF	lung
5	chr12:62866600-62953200	Weak transcription	Psoas Muscle	Psoas
6	chr12:62871000-62910800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr12:62871800-62926200	Weak transcription	Fetal Brain Male	brain
8	chr12:62874600-62917400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr12:62876000-62937400	Weak transcription	Gastric	stomach
10	chr12:62876200-62913000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr12:62879000-62912000	Weak transcription	Brain Angular Gyrus	brain
12	chr12:62886000-62911200	Weak transcription	Brain Substantia Nigra	brain
13	chr12:62889200-62949600	Weak transcription	Small Intestine	intestine
14	chr12:62892800-62911200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr12:62894400-62926200	Weak transcription	NH-A	brain
16	chr12:62897000-62916400	Weak transcription	Fetal Heart	heart
17	chr12:62897600-62931000	Weak transcription	K562	blood
18	chr12:62897600-62944000	Weak transcription	Esophagus	oesophagus
19	chr12:62897800-62911200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr12:62898000-62923400	Weak transcription	NHDF-Ad	bronchial
21	chr12:62898600-62912800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr12:62900600-62909600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr12:62901200-62906600	Strong transcription	Placenta	Placenta
24	chr12:62901200-62909000	Strong transcription	Cortex derived primary cultured neurospheres	brain
25	chr12:62901800-62907000	Strong transcription	Rectal Mucosa Donor 29	rectum
26	chr12:62901800-62907800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr12:62902400-62911200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chr12:62902400-62929200	Weak transcription	Rectal Smooth Muscle	rectum
29	chr12:62902600-62912200	Weak transcription	Brain Cingulate Gyrus	brain
30	chr12:62902600-62913200	Weak transcription	Ovary	ovary
31	chr12:62902600-62926600	Weak transcription	Stomach Smooth Muscle	stomach
32	chr12:62902600-62927000	Weak transcription	Colonic Mucosa	Colon
33	chr12:62903000-62907000	ZNF genes & repeats	GM12878-XiMat	blood
34	chr12:62903400-62906600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr12:62903600-62908000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr12:62903600-62909000	Weak transcription	Fetal Kidney	kidney
37	chr12:62903600-62912400	Weak transcription	Brain Inferior Temporal Lobe	brain
38	chr12:62903600-62917000	Weak transcription	HepG2	liver
39	chr12:62903600-62918800	Weak transcription	Osteobl	bone
40	chr12:62903600-62926200	Weak transcription	Primary neutrophils fromperipheralblood	blood
41	chr12:62903600-62926200	Weak transcription	Primary T cells fromperipheralblood	blood
42	chr12:62903600-62926200	Weak transcription	Skeletal Muscle Female	skeletal muscle
43	chr12:62903600-62949800	Weak transcription	NHEK	skin
44	chr12:62903800-62911200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
45	chr12:62903800-62924400	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr12:62903800-62926200	Weak transcription	Hela-S3	cervix
47	chr12:62904200-62907000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
48	chr12:62904200-62910800	Weak transcription	Primary T helper cells PMA-I stimulated	--
49	chr12:62904400-62908400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr12:62904400-62908600	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links