Variant report

Variant	rs12523774
Chromosome Location	chr6:107033469-107033470
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:90)

rs_ID	r²[population]
rs1037955	0.90[CEU][hapmap]
rs11751653	0.91[AFR][1000 genomes]
rs11758586	0.91[AFR][1000 genomes]
rs11759221	1.00[ASN][1000 genomes]
rs11968064	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12526141	1.00[CHB][hapmap];0.94[JPT][hapmap];0.99[ASN][1000 genomes]
rs13319	0.90[CEU][hapmap]
rs1419054	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1676016	0.81[CEU][hapmap]
rs17052215	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17067345	0.91[AFR][1000 genomes]
rs17067368	0.90[CEU][hapmap];0.91[AFR][1000 genomes]
rs17067424	0.86[AFR][1000 genomes]
rs17067430	0.84[AFR][1000 genomes]
rs1770728	0.81[CEU][hapmap]
rs1770732	0.81[CEU][hapmap]
rs2054366	0.90[CEU][hapmap]
rs2066202	0.91[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2126395	0.90[CHB][hapmap];0.94[JPT][hapmap];0.92[ASN][1000 genomes]
rs2219667	0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs2297971	0.81[CEU][hapmap]
rs2615206	0.90[CEU][hapmap]
rs2615207	0.90[CEU][hapmap]
rs2642469	0.88[CEU][hapmap]
rs3747790	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4440506	0.91[AFR][1000 genomes]
rs4516976	0.91[AFR][1000 genomes]
rs4523123	0.90[CEU][hapmap];0.91[AFR][1000 genomes]
rs4945759	0.90[CEU][hapmap]
rs4946763	0.95[ASN][1000 genomes]
rs4946764	0.90[CEU][hapmap]
rs55702661	0.91[AFR][1000 genomes]
rs56120103	0.88[AFR][1000 genomes]
rs56257618	0.91[AFR][1000 genomes]
rs57110857	0.91[AFR][1000 genomes]
rs57424436	1.00[ASN][1000 genomes]
rs58972320	1.00[ASN][1000 genomes]
rs59698263	0.91[AFR][1000 genomes]
rs60052218	0.91[AFR][1000 genomes]
rs60505757	0.89[AFR][1000 genomes]
rs60533767	0.91[AFR][1000 genomes]
rs61465560	0.91[AFR][1000 genomes]
rs66579211	0.86[AFR][1000 genomes]
rs66607211	0.91[AFR][1000 genomes]
rs67671335	0.91[AFR][1000 genomes]
rs6903754	0.90[CEU][hapmap];0.82[YRI][hapmap];0.88[AFR][1000 genomes]
rs6907164	0.90[CEU][hapmap];0.82[YRI][hapmap];0.91[AFR][1000 genomes]
rs6913374	0.87[AFR][1000 genomes]
rs6914306	0.86[AFR][1000 genomes]
rs6919137	0.88[AFR][1000 genomes]
rs6926307	0.90[CEU][hapmap];0.81[YRI][hapmap];0.91[AFR][1000 genomes]
rs6926670	0.90[CEU][hapmap];0.81[YRI][hapmap];0.91[AFR][1000 genomes]
rs6926833	0.90[CEU][hapmap];0.81[YRI][hapmap];0.91[AFR][1000 genomes]
rs6926888	0.91[AFR][1000 genomes]
rs7451968	0.88[AFR][1000 genomes]
rs7738230	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7741101	0.90[CEU][hapmap]
rs7770930	0.90[CEU][hapmap]
rs7776287	0.90[CEU][hapmap];0.82[YRI][hapmap];0.91[AFR][1000 genomes]
rs7776294	0.90[CEU][hapmap];0.82[YRI][hapmap];0.91[AFR][1000 genomes]
rs8013	0.90[CEU][hapmap]
rs9320182	0.90[CEU][hapmap]
rs9320183	0.90[CEU][hapmap];0.91[AFR][1000 genomes]
rs9384622	0.94[ASN][1000 genomes]
rs9386567	0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9398095	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9480684	0.90[CEU][hapmap];0.91[YRI][hapmap];0.94[AFR][1000 genomes]
rs9480685	0.90[CEU][hapmap]
rs9480686	0.90[CEU][hapmap];0.91[AFR][1000 genomes]
rs9480687	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9480688	0.91[AFR][1000 genomes]
rs9480689	0.90[CEU][hapmap];0.82[YRI][hapmap];0.91[AFR][1000 genomes]
rs9486396	0.89[AFR][1000 genomes]
rs9486397	0.91[AFR][1000 genomes]
rs9486398	0.90[CEU][hapmap]
rs9486399	0.90[CEU][hapmap];0.91[AFR][1000 genomes]
rs9486403	0.86[CEU][hapmap]
rs9486404	0.90[CEU][hapmap]
rs9486406	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9486410	0.90[CEU][hapmap]
rs9486411	0.90[CEU][hapmap]
rs9486412	0.91[AFR][1000 genomes]
rs9486413	0.91[AFR][1000 genomes]
rs9486414	1.00[CEU][hapmap];0.87[YRI][hapmap];0.91[AFR][1000 genomes]
rs9486415	0.90[CEU][hapmap];0.87[AFR][1000 genomes]
rs9486416	0.91[AFR][1000 genomes]
rs9486417	0.91[AFR][1000 genomes]
rs9486418	0.84[AFR][1000 genomes]
rs965347	0.90[CEU][hapmap]
rs9689006	0.90[CEU][hapmap];0.82[YRI][hapmap];0.84[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532047	chr6:106591482-107143252	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv870375	chr6:106696090-107047892	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106996400-107074000	Weak transcription	Fetal Kidney	kidney
2	chr6:107010200-107064600	Weak transcription	A549	lung
3	chr6:107014400-107038800	Weak transcription	Fetal Brain Female	brain
4	chr6:107016200-107039400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:107017800-107041000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr6:107018000-107052600	Weak transcription	Colonic Mucosa	Colon
7	chr6:107018400-107066400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr6:107018400-107076400	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr6:107018600-107039000	Weak transcription	Placenta	Placenta
10	chr6:107018800-107039400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr6:107018800-107076200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr6:107019000-107076200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr6:107019200-107034800	Weak transcription	GM12878-XiMat	blood
14	chr6:107019400-107034400	Weak transcription	NHEK	skin
15	chr6:107019400-107035200	Weak transcription	Fetal Lung	lung
16	chr6:107019800-107076400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr6:107020200-107037600	Weak transcription	Fetal Heart	heart
18	chr6:107022000-107076400	Weak transcription	Primary neutrophils fromperipheralblood	blood
19	chr6:107023200-107038200	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr6:107023200-107038600	Weak transcription	Brain Germinal Matrix	brain
21	chr6:107023400-107034200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr6:107023400-107034200	Weak transcription	Right Ventricle	heart
23	chr6:107023400-107034400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr6:107023400-107034600	Weak transcription	Hela-S3	cervix
25	chr6:107023400-107038200	Weak transcription	HSMM	muscle
26	chr6:107023400-107038600	Weak transcription	NH-A	brain
27	chr6:107023400-107039000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr6:107023400-107039600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr6:107023400-107050200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr6:107023400-107068800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr6:107023400-107076600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr6:107023600-107038800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr6:107023800-107034600	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr6:107024200-107035200	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr6:107026200-107035000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
36	chr6:107026400-107038800	Weak transcription	Brain Anterior Caudate	brain
37	chr6:107027600-107038600	Weak transcription	NHDF-Ad	bronchial
38	chr6:107027800-107033600	Weak transcription	Osteobl	bone
39	chr6:107028600-107036400	Strong transcription	Primary B cells from peripheral blood	blood
40	chr6:107029000-107033800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr6:107029000-107034000	Strong transcription	Primary T cells from cord blood	blood
42	chr6:107029200-107036000	Strong transcription	Duodenum Mucosa	Duodenum
43	chr6:107029200-107036200	Strong transcription	Primary monocytes fromperipheralblood	blood
44	chr6:107029200-107036400	Strong transcription	Monocytes-CD14+_RO01746	blood
45	chr6:107029400-107035800	Strong transcription	Primary B cells from cord blood	blood
46	chr6:107029400-107036000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr6:107029400-107036400	Strong transcription	Primary T helper cells fromperipheralblood	blood
48	chr6:107029600-107034400	Strong transcription	Primary T cells fromperipheralblood	blood
49	chr6:107029600-107052600	Weak transcription	Pancreas	Pancrea
50	chr6:107029800-107038600	Weak transcription	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links