Variant report

Variant	rs1866224
Chromosome Location	chr4:166334840-166334841
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	chr4:166332549..166335488-chr4:166340232..166341831,2	K562	blood:

Extended variants
information (count: 87 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs10008344	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10011067	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10011401	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10011416	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10014827	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10018971	0.86[CEU][hapmap];0.89[JPT][hapmap]
rs10019052	0.82[CEU][hapmap];0.89[JPT][hapmap]
rs10027722	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10029982	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10030374	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10517843	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10517844	0.83[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10517845	0.88[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.93[TSI][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10517846	0.82[CEU][hapmap];0.90[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap]
rs10517848	0.90[JPT][hapmap]
rs10517849	0.86[GIH][hapmap];0.90[JPT][hapmap]
rs10517850	0.86[GIH][hapmap];0.84[JPT][hapmap];0.83[MKK][hapmap];1.00[YRI][hapmap]
rs11724900	0.82[CEU][hapmap];0.90[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap]
rs11727980	0.86[GIH][hapmap];0.90[JPT][hapmap]
rs11728234	0.82[CEU][hapmap];0.94[GIH][hapmap];0.90[JPT][hapmap]
rs11728337	0.82[CEU][hapmap];0.90[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap]
rs11731695	0.82[CEU][hapmap];0.90[JPT][hapmap]
rs11731822	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11732161	0.82[CEU][hapmap];0.90[JPT][hapmap]
rs11732478	0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11732583	0.88[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11732618	0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11732933	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11733216	0.82[CEU][hapmap];0.90[JPT][hapmap]
rs11735607	0.82[CEU][hapmap];0.89[JPT][hapmap]
rs11736871	0.88[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13102614	0.82[CEU][hapmap];0.90[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap]
rs13103210	0.82[JPT][hapmap]
rs13103665	0.82[CEU][hapmap];0.90[JPT][hapmap]
rs13103782	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13107292	0.82[CEU][hapmap];0.90[JPT][hapmap]
rs13110546	0.82[CEU][hapmap];0.90[JPT][hapmap]
rs13110900	0.82[CEU][hapmap];0.90[JPT][hapmap]
rs13111798	1.00[CHB][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13125242	0.87[JPT][hapmap]
rs13125832	0.84[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13126038	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13126229	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13131303	0.82[CEU][hapmap];0.89[JPT][hapmap]
rs13131657	0.82[CEU][hapmap];0.94[JPT][hapmap]
rs13134608	0.83[EUR][1000 genomes]
rs13147995	0.89[JPT][hapmap]
rs13149691	0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13149935	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1370680	0.90[JPT][hapmap]
rs17488569	0.87[YRI][hapmap]
rs17624977	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17686882	0.83[JPT][hapmap];0.84[AMR][1000 genomes]
rs17687178	0.82[CEU][hapmap];0.90[JPT][hapmap]
rs1866221	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1866222	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1866223	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1866225	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1946816	0.82[CEU][hapmap];0.88[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap]
rs2033767	0.82[CEU][hapmap];0.90[JPT][hapmap]
rs28409044	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28547315	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs28573326	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2874700	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4266249	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4293756	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4299540	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4349560	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4408916	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4441715	0.90[JPT][hapmap]
rs4461476	0.90[JPT][hapmap]
rs4481204	0.86[GIH][hapmap];0.90[JPT][hapmap]
rs67650739	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6828394	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6832392	0.82[CEU][hapmap];0.90[JPT][hapmap]
rs6832627	0.82[CEU][hapmap];0.89[JPT][hapmap]
rs72703616	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs729699	0.88[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73005556	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9308104	0.84[MEX][hapmap]
rs9308105	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9308106	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9631753	0.84[MEX][hapmap]
rs9992011	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9993860	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9996980	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9997245	0.83[MEX][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1866224	CPE	cis	cerebellum	SCAN
rs1866224	DDX60	cis	cerebellum	SCAN

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:166319600-166361800	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr4:166320000-166339000	Weak transcription	Brain Hippocampus Middle	brain
3	chr4:166320000-166339200	Weak transcription	Brain Substantia Nigra	brain
4	chr4:166326000-166339000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr4:166326400-166338800	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr4:166326600-166337200	Weak transcription	Aorta	Aorta
7	chr4:166326800-166364400	Weak transcription	Brain Germinal Matrix	brain
8	chr4:166327400-166339200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr4:166330800-166337200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr4:166332000-166335000	Enhancers	Pancreatic Islets	Pancreatic Islet
11	chr4:166332200-166335800	Weak transcription	Brain Anterior Caudate	brain
12	chr4:166332800-166339200	Weak transcription	Brain Angular Gyrus	brain
13	chr4:166333200-166335200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr4:166333800-166337600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr4:166334000-166335000	Strong transcription	HepG2	liver
16	chr4:166334800-166335200	Weak transcription	Fetal Brain Male	brain
17	chr4:166334800-166336400	Enhancers	Fetal Brain Female	brain
18	chr4:166334800-166342600	Weak transcription	Brain Cingulate Gyrus	brain
19	chr4:166334800-166348000	Weak transcription	Pancreas	Pancrea

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