Variant report

Variant	rs11208024
Chromosome Location	chr1:63225912-63225913
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 114 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:114)

rs_ID	r²[population]
rs10159426	0.84[CHD][hapmap];0.89[JPT][hapmap]
rs10493327	0.85[CEU][hapmap];0.94[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.87[ASN][1000 genomes]
rs10736399	0.86[ASN][1000 genomes]
rs10749734	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10789124	0.90[ASN][1000 genomes]
rs10789125	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10789129	0.82[ASN][1000 genomes]
rs10889365	0.86[EUR][1000 genomes]
rs10889366	0.86[ASN][1000 genomes]
rs10889371	0.91[ASN][1000 genomes]
rs10889372	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10889374	0.91[ASN][1000 genomes]
rs10889375	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10889376	0.92[ASN][1000 genomes]
rs10889383	0.84[CHD][hapmap];1.00[JPT][hapmap]
rs10889385	0.82[ASN][1000 genomes]
rs10889386	0.84[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs11208013	0.86[ASN][1000 genomes]
rs11208019	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11208021	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11208023	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11208025	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11208026	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11208027	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11208032	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11208035	0.92[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11208037	0.92[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs11208038	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs11208040	0.88[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11208043	0.87[ASN][1000 genomes]
rs11208045	0.87[ASN][1000 genomes]
rs11208046	0.88[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs11208047	1.00[JPT][hapmap]
rs11208050	0.82[ASN][1000 genomes]
rs11579171	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11579518	0.90[ASN][1000 genomes]
rs11584363	0.82[ASN][1000 genomes]
rs11587081	0.87[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11803404	0.81[ASN][1000 genomes]
rs11807368	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12085904	0.91[ASN][1000 genomes]
rs12120847	0.89[ASN][1000 genomes]
rs12128286	0.81[ASN][1000 genomes]
rs12129919	0.84[CHB][hapmap];0.95[ASN][1000 genomes]
rs12134455	0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12138091	0.92[ASN][1000 genomes]
rs12567340	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12567999	0.88[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs12743698	0.85[ASN][1000 genomes]
rs12748640	0.85[ASN][1000 genomes]
rs12752360	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1333733	0.84[CHD][hapmap];1.00[JPT][hapmap]
rs1333736	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs1360677	0.95[JPT][hapmap]
rs1360678	0.83[ASN][1000 genomes]
rs17097064	0.81[ASN][1000 genomes]
rs1981067	0.92[CEU][hapmap];0.84[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.81[ASN][1000 genomes]
rs2149115	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2366820	0.88[CEU][hapmap];0.89[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2366821	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2886770	0.84[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs2886771	0.87[ASN][1000 genomes]
rs3211074	0.92[CEU][hapmap];0.83[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap]
rs3737892	0.85[ASN][1000 genomes]
rs3737893	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.87[ASN][1000 genomes]
rs4396149	0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4448545	0.88[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs6587990	0.92[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.90[ASN][1000 genomes]
rs6587991	0.89[ASN][1000 genomes]
rs6587992	0.85[ASN][1000 genomes]
rs6587993	0.85[ASN][1000 genomes]
rs6587994	0.85[ASN][1000 genomes]
rs6587996	0.81[ASN][1000 genomes]
rs6656119	0.81[ASN][1000 genomes]
rs6656747	0.92[ASN][1000 genomes]
rs6657707	0.95[ASN][1000 genomes]
rs6660873	0.90[ASN][1000 genomes]
rs6664372	0.91[ASN][1000 genomes]
rs6664673	0.82[ASN][1000 genomes]
rs6664677	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6665455	0.80[ASN][1000 genomes]
rs6665932	0.85[ASN][1000 genomes]
rs6670072	0.83[ASN][1000 genomes]
rs6670694	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs6676637	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6676821	0.83[ASN][1000 genomes]
rs6677051	0.83[ASN][1000 genomes]
rs6679582	0.84[CHD][hapmap];1.00[JPT][hapmap]
rs6682286	0.87[ASN][1000 genomes]
rs6683423	0.84[CHD][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs6683732	0.83[ASN][1000 genomes]
rs6683832	0.84[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs6686232	0.88[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs6687943	1.00[JPT][hapmap]
rs6695607	0.87[ASN][1000 genomes]
rs6699457	1.00[JPT][hapmap]
rs6702274	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7414021	0.82[ASN][1000 genomes]
rs7512374	0.87[ASN][1000 genomes]
rs7512529	0.87[ASN][1000 genomes]
rs7513520	0.92[CEU][hapmap];0.83[MEX][hapmap]
rs7517722	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7519205	0.88[CEU][hapmap];0.84[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7521483	0.92[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs7524508	0.87[ASN][1000 genomes]
rs7527423	0.81[ASN][1000 genomes]
rs7527905	0.85[ASN][1000 genomes]
rs7540030	0.84[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7540205	0.83[ASN][1000 genomes]
rs7543380	0.91[ASN][1000 genomes]
rs7546804	0.86[ASN][1000 genomes]
rs7553110	0.82[ASN][1000 genomes]
rs7555606	0.82[ASN][1000 genomes]
rs998096	0.81[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11208024	HOOK1	cis	cerebellum	SCAN
rs11208024	ATG4C	cis	cerebellum	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:63219600-63226800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr1:63221200-63226400	Weak transcription	Placenta	Placenta
3	chr1:63222600-63226600	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr1:63222600-63226800	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr1:63225400-63226800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr1:63225600-63226600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr1:63225800-63227400	Enhancers	Esophagus	oesophagus
8	chr1:63225800-63231400	Weak transcription	Right Atrium	heart

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