Variant report

Variant	rs7543380
Chromosome Location	chr1:63234668-63234669
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 95 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs10159426	1.00[CEU][hapmap];0.89[CHB][hapmap];0.89[JPT][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10493327	0.88[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs10736399	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10749734	0.86[ASN][1000 genomes]
rs10789124	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10789125	0.89[ASN][1000 genomes]
rs10789129	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10889366	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10889371	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10889372	0.91[ASN][1000 genomes]
rs10889374	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10889375	0.90[ASN][1000 genomes]
rs10889376	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10889383	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10889384	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10889386	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10889387	0.85[EUR][1000 genomes]
rs11208013	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11208019	0.90[ASN][1000 genomes]
rs11208023	0.91[ASN][1000 genomes]
rs11208024	0.91[ASN][1000 genomes]
rs11208025	0.92[ASN][1000 genomes]
rs11208026	0.92[ASN][1000 genomes]
rs11208027	0.90[ASN][1000 genomes]
rs11208032	0.89[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11208035	0.89[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs11208037	0.89[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs11208038	0.89[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs11208040	0.92[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs11208045	0.80[ASN][1000 genomes]
rs11208046	0.88[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs11208047	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11579171	0.89[ASN][1000 genomes]
rs11579518	0.83[ASN][1000 genomes]
rs11587081	1.00[JPT][hapmap]
rs11807368	0.92[ASN][1000 genomes]
rs12085904	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12120847	0.82[ASN][1000 genomes]
rs12129919	0.80[CHB][hapmap];0.87[ASN][1000 genomes]
rs12134455	0.82[ASN][1000 genomes]
rs12138091	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12567340	0.88[ASN][1000 genomes]
rs12567999	0.89[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs12752360	0.89[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs1333733	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1333734	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1333736	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs1360677	1.00[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1413242	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1981067	1.00[JPT][hapmap]
rs2050248	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2149115	0.85[ASN][1000 genomes]
rs2366820	0.83[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs2366821	0.89[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2366822	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2803238	0.80[CEU][hapmap]
rs2886770	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2886771	0.80[ASN][1000 genomes]
rs3211074	1.00[JPT][hapmap]
rs3737893	0.89[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs4396149	0.92[ASN][1000 genomes]
rs4448545	0.80[CHB][hapmap];1.00[JPT][hapmap]
rs6587990	0.89[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs6587991	0.82[ASN][1000 genomes]
rs6656747	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6657552	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6657707	0.87[ASN][1000 genomes]
rs6660873	0.83[ASN][1000 genomes]
rs6663165	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6664372	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6664673	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6664677	0.91[ASN][1000 genomes]
rs6665455	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6670694	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs6676637	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs6679582	0.96[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6683423	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6683832	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6686232	0.89[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs6687943	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6695607	0.80[ASN][1000 genomes]
rs6699457	0.96[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6702274	0.90[ASN][1000 genomes]
rs7414021	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7512374	0.80[ASN][1000 genomes]
rs7512529	0.80[ASN][1000 genomes]
rs7517722	0.85[ASN][1000 genomes]
rs7519205	1.00[JPT][hapmap]
rs7521483	0.80[CHB][hapmap];1.00[JPT][hapmap]
rs7522726	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7524508	0.80[ASN][1000 genomes]
rs7531329	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7535496	0.85[EUR][1000 genomes]
rs7540030	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7546804	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7543380	ATG4C///CTR9	Cis_1M	lymphoblastoid	RTeQTL
rs7543380	ATG4C	cis	Thyroid	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:63234600-63239000	Weak transcription	Placenta	Placenta

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