Variant report

Variant	rs12584416
Chromosome Location	chr13:52039266-52039267
allele	G/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	ARID3A	chr13:52039094-52039582	HepG2	liver:	n/a	n/a
2	FOXA1	chr13:52039243-52039508	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:52024267..52031024-chr13:52038927..52044194,9	MCF-7	breast:
2	chr13:52033233..52035257-chr13:52037925..52039840,2	K562	blood:

Variant related genes	Relation type
RN7SL320P	TF binding region
ENSG00000102786	Chromatin interaction
ENSG00000236778	Chromatin interaction
ENSG00000224892	Chromatin interaction

Extended variants
information (count: 128 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:128)

rs_ID	r²[population]
rs11148215	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11148216	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11148217	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11148219	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs11838784	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11839165	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11842573	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11842878	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11843638	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11843641	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12100084	0.93[EUR][1000 genomes]
rs12100112	0.93[EUR][1000 genomes]
rs12184757	1.00[CEU][hapmap]
rs12584325	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12585171	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12585343	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12586110	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1413103	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1570549	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1570550	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17194921	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17194928	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17194935	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17194955	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17194985	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17195027	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17529985	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17790799	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17790811	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17790838	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4941699	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs4942992	0.86[ASN][1000 genomes]
rs4942993	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4942994	0.96[EUR][1000 genomes]
rs4942995	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs4942996	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs4942997	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4942998	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4942999	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs59024783	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59215783	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs60860538	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61956888	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61956889	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61956909	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61956910	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61956911	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61956912	1.00[EUR][1000 genomes]
rs61956913	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs61956914	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61956915	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61956916	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61956917	0.93[EUR][1000 genomes]
rs61956937	0.93[EUR][1000 genomes]
rs61956938	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61956942	0.93[EUR][1000 genomes]
rs61956943	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61956944	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61956945	0.86[EUR][1000 genomes]
rs61956947	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61956949	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61956950	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61956951	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61956952	0.93[EUR][1000 genomes]
rs61956955	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61958268	1.00[ASN][1000 genomes]
rs73195977	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73195982	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73195996	0.93[EUR][1000 genomes]
rs73197808	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7338174	0.81[EUR][1000 genomes]
rs7400061	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7988157	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7990114	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7992891	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs7995268	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8001625	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9316535	1.00[EUR][1000 genomes]
rs9526756	1.00[ASN][1000 genomes]
rs9563041	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9563042	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9563043	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9563044	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9563045	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9563047	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9563049	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9563050	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9563052	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9563053	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9563054	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9563055	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9563056	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568564	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9568565	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9568566	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9568567	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9568568	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9568569	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9568570	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9568571	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9568572	1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs9568573	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9568574	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9568575	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9568576	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9568578	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9568579	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9568580	0.81[EUR][1000 genomes]
rs9568581	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9568585	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568586	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9568588	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568589	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568590	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568591	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568592	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568593	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568594	0.93[EUR][1000 genomes]
rs9568596	0.93[EUR][1000 genomes]
rs9568609	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568610	0.91[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9568635	1.00[CEU][hapmap]
rs9634684	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs9634685	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9634838	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9634839	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9634840	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9634844	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:52031000-52039800	Weak transcription	A549	lung
2	chr13:52031000-52044800	Weak transcription	Liver	Liver
3	chr13:52031200-52041400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr13:52031600-52041600	Weak transcription	Pancreas	Pancrea
5	chr13:52031800-52045400	Weak transcription	Primary B cells from cord blood	blood
6	chr13:52038800-52040400	Enhancers	HepG2	liver

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