Variant report

Variant	rs12651390
Chromosome Location	chr4:54249185-54249186
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:54248839..54251059-chr4:54253637..54255570,3	K562	blood:

Extended variants
information (count: 64 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10000746	0.85[CEU][hapmap];0.89[CHB][hapmap];0.89[JPT][hapmap]
rs10001201	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs10007903	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10011259	0.86[CEU][hapmap]
rs10021541	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs10028142	0.80[ASN][1000 genomes]
rs1021099	0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs11133266	0.83[CEU][hapmap]
rs11133276	0.91[CEU][hapmap];0.82[YRI][hapmap]
rs11722866	0.81[ASN][1000 genomes]
rs11723755	0.81[ASN][1000 genomes]
rs11725230	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.81[ASN][1000 genomes]
rs11734039	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs11734681	0.96[CEU][hapmap];0.87[CHB][hapmap];0.85[JPT][hapmap]
rs11947256	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs12507563	0.95[CEU][hapmap]
rs12507739	0.95[CEU][hapmap];0.91[CHB][hapmap];0.84[JPT][hapmap]
rs12508701	0.95[CEU][hapmap];0.86[CHB][hapmap];0.84[JPT][hapmap]
rs12511088	0.96[CEU][hapmap]
rs12511253	0.95[CEU][hapmap];0.81[CHB][hapmap]
rs12642403	0.95[CEU][hapmap];0.82[CHB][hapmap]
rs12649718	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1471597	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1481819	0.86[CEU][hapmap]
rs1481824	0.86[CEU][hapmap]
rs1531748	0.91[CEU][hapmap]
rs1600795	0.82[CEU][hapmap]
rs17082893	0.95[CEU][hapmap];0.86[CHB][hapmap];0.84[JPT][hapmap];0.81[YRI][hapmap]
rs2090117	0.86[CEU][hapmap]
rs2271559	0.95[CEU][hapmap]
rs2412447	0.87[CEU][hapmap];0.87[CHB][hapmap];0.86[JPT][hapmap];0.91[YRI][hapmap];0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2412488	0.86[CEU][hapmap]
rs35499169	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3765158	0.86[CEU][hapmap]
rs3811785	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.81[ASN][1000 genomes]
rs4864760	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4864767	0.95[CEU][hapmap];0.82[CHB][hapmap]
rs56998298	0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6554104	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6554105	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs6554106	0.86[CEU][hapmap]
rs6818788	0.96[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap]
rs6822201	0.96[CEU][hapmap]
rs6828559	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6833766	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.81[ASN][1000 genomes]
rs6838260	0.95[CEU][hapmap];0.86[CHB][hapmap];0.84[JPT][hapmap]
rs6839922	0.95[CEU][hapmap]
rs6840343	0.83[CEU][hapmap];0.82[CHB][hapmap]
rs6840530	0.96[CEU][hapmap]
rs6848887	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6852884	0.82[CEU][hapmap]
rs7655975	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7682199	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap]
rs7686177	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7686876	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7689981	0.81[ASN][1000 genomes]
rs7691578	0.81[ASN][1000 genomes]
rs7697622	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7698792	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.81[ASN][1000 genomes]
rs931181	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs931182	0.87[CEU][hapmap]
rs9312639	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9995284	0.81[ASN][1000 genomes]
rs9996883	0.95[CEU][hapmap];0.86[CHB][hapmap];0.84[JPT][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12651390	ZNF585A	cis	Frontal Cortex	GTEx

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:54244600-54250200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr4:54244600-54250200	Weak transcription	Left Ventricle	heart
3	chr4:54244600-54256000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr4:54244600-54256000	Weak transcription	Esophagus	oesophagus
5	chr4:54244600-54256000	Weak transcription	Gastric	stomach
6	chr4:54244600-54256000	Weak transcription	Lung	lung
7	chr4:54244600-54256200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr4:54244600-54272800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr4:54244600-54310600	Weak transcription	Spleen	Spleen
10	chr4:54244600-54319200	Weak transcription	Pancreas	Pancrea
11	chr4:54244800-54250200	Weak transcription	Fetal Muscle Trunk	muscle
12	chr4:54244800-54256000	Weak transcription	Stomach Mucosa	stomach
13	chr4:54245000-54249800	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr4:54245000-54252800	Weak transcription	Brain Angular Gyrus	brain
15	chr4:54245000-54271400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr4:54245200-54249400	Weak transcription	Fetal Intestine Small	intestine
17	chr4:54245200-54250200	Weak transcription	Fetal Stomach	stomach
18	chr4:54245200-54252800	Weak transcription	HSMMtube	muscle
19	chr4:54245400-54249600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr4:54245400-54251800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr4:54245400-54253000	Weak transcription	Colonic Mucosa	Colon
22	chr4:54245400-54253000	Weak transcription	Psoas Muscle	Psoas
23	chr4:54245400-54256000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr4:54245400-54279400	Weak transcription	Right Ventricle	heart
25	chr4:54245600-54252800	Weak transcription	Stomach Smooth Muscle	stomach
26	chr4:54245600-54269600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr4:54245600-54270200	Strong transcription	HUES48 Cell Line	embryonic stem cell
28	chr4:54245800-54249400	Weak transcription	Primary neutrophils fromperipheralblood	blood
29	chr4:54246000-54250000	Weak transcription	Fetal Kidney	kidney
30	chr4:54246000-54257800	Weak transcription	Fetal Heart	heart
31	chr4:54246000-54270200	Strong transcription	HUES64 Cell Line	embryonic stem cell
32	chr4:54246000-54270200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
33	chr4:54246200-54250600	Weak transcription	Brain Substantia Nigra	brain
34	chr4:54246200-54251600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr4:54246200-54252800	Weak transcription	Fetal Brain Female	brain
36	chr4:54246200-54252800	Weak transcription	Rectal Smooth Muscle	rectum
37	chr4:54246200-54256000	Weak transcription	Brain Cingulate Gyrus	brain
38	chr4:54246200-54256000	Weak transcription	Brain Hippocampus Middle	brain
39	chr4:54246200-54276200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
40	chr4:54246200-54319200	Weak transcription	Aorta	Aorta
41	chr4:54246400-54250800	Weak transcription	Fetal Brain Male	brain
42	chr4:54246400-54251800	Weak transcription	Brain Anterior Caudate	brain
43	chr4:54246400-54255600	Weak transcription	Ovary	ovary
44	chr4:54246400-54259800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr4:54246400-54259800	Strong transcription	Primary B cells from peripheral blood	blood
46	chr4:54246600-54249800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr4:54246600-54250000	Weak transcription	HUVEC	blood vessel
48	chr4:54246600-54250600	Weak transcription	NHEK	skin
49	chr4:54246600-54252600	Weak transcription	NHLF	lung
50	chr4:54246600-54253400	Weak transcription	Colon Smooth Muscle	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links