Variant report

Variant	rs2201363
Chromosome Location	chr10:117057866-117057867
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	GATA3	chr10:117057634-117058145	MCF-7	breast:	n/a	chr10:117057900-117057909 chr10:117057757-117057773

Variant related genes	Relation type
ATRNL1	TF binding region

Extended variants
information (count: 30 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10787567	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10787573	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs11197173	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11498596	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.97[TSI][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12253499	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1264764	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[GIH][hapmap];0.94[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.85[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs1264770	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.81[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.80[LWK][hapmap];0.96[MEX][hapmap];0.97[TSI][hapmap]
rs1264773	1.00[CEU][hapmap];0.90[CHB][hapmap];0.93[GIH][hapmap];0.94[JPT][hapmap];0.88[MEX][hapmap];0.97[TSI][hapmap]
rs1264781	0.90[ASW][hapmap];0.87[CEU][hapmap];0.95[CHB][hapmap];0.81[GIH][hapmap];0.94[JPT][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap]
rs1264798	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs1494174	0.82[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1565833	0.95[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap];0.84[TSI][hapmap];0.85[ASN][1000 genomes]
rs1615076	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs2165988	1.00[CEU][hapmap];0.90[CHB][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.97[TSI][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2256563	1.00[CEU][hapmap];0.90[JPT][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2485966	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2485968	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2485971	0.95[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap];0.84[TSI][hapmap];0.85[ASN][1000 genomes]
rs2587461	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs584030	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs594160	0.82[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs615905	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs649292	0.82[CEU][hapmap];0.95[CHB][hapmap];0.81[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.88[LWK][hapmap];0.92[MEX][hapmap];0.97[TSI][hapmap]
rs650060	0.81[CEU][hapmap];0.95[CHB][hapmap];0.93[JPT][hapmap]
rs675816	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs679986	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs683117	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs703352	0.80[ASN][1000 genomes]
rs9630104	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9630105	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2201363	EIF3A	cis	parietal	SCAN
rs2201363	PRLHR	cis	parietal	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:117050600-117064000	Weak transcription	Aorta	Aorta
2	chr10:117050600-117079200	Weak transcription	Ovary	ovary
3	chr10:117053800-117064400	Weak transcription	Brain Germinal Matrix	brain
4	chr10:117054600-117062000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr10:117054600-117066200	Weak transcription	Fetal Brain Male	brain
6	chr10:117054800-117063200	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr10:117055200-117075800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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