Variant report

Variant	rs3733461
Chromosome Location	chr4:147032228-147032229
allele	A/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	RUNX3	chr4:147032003-147032271	GM12878	blood:	n/a	n/a
2	RUNX3	chr4:147031993-147032415	GM12878	blood:	n/a	n/a
3	NFIC	chr4:147031932-147032412	GM12878	blood:	n/a	n/a
4	EP300	chr4:147032071-147032240	GM12878	blood:	n/a	n/a
5	MTA3	chr4:147031493-147032322	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
ENSG00000251024	TF binding region

Extended variants
information (count: 42 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10017509	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10024190	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11100916	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11722991	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.94[TSI][hapmap];0.94[YRI][hapmap];0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11731099	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11733512	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11734297	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11734320	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.94[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11931374	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11940961	0.92[CEU][hapmap]
rs12186313	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12331881	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12331886	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12332062	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17021186	0.84[CEU][hapmap]
rs17756234	0.88[CEU][hapmap]
rs17757522	0.88[CEU][hapmap]
rs17757685	0.83[CEU][hapmap]
rs17814065	0.83[CEU][hapmap]
rs1864371	0.92[CEU][hapmap]
rs1865531	0.84[CEU][hapmap]
rs28691582	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3775498	0.84[CEU][hapmap]
rs3815967	0.84[CEU][hapmap]
rs4076765	1.00[ASN][1000 genomes]
rs4835030	0.88[CEU][hapmap];1.00[CHB][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4835283	1.00[CEU][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4835284	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4835286	0.92[CEU][hapmap]
rs6815527	0.83[CEU][hapmap]
rs6816161	0.83[CEU][hapmap]
rs6820462	0.83[CEU][hapmap]
rs6839123	0.83[CEU][hapmap]
rs72727909	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs731517	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs731518	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs731519	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs731520	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs919482	0.84[CEU][hapmap]
rs919483	0.88[CEU][hapmap]
rs9308199	0.84[CEU][hapmap]
rs9995546	0.97[ASN][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs3733461	RP11-6L6.2	cis	Adipose Subcutaneous	GTEx
rs3733461	LSM6	cis	parietal	SCAN
rs3733461	LSM6	cis	cerebellum	SCAN
rs3733461	RP11-6L6.2	cis	lung	GTEx
rs3733461	RP11-6L6.2	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:147024600-147035000	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr4:147029400-147033600	Enhancers	Fetal Intestine Small	intestine
3	chr4:147030200-147034800	Enhancers	Primary neutrophils fromperipheralblood	blood
4	chr4:147030800-147034400	Enhancers	Primary B cells from cord blood	blood
5	chr4:147031400-147034600	Enhancers	Primary B cells from peripheral blood	blood
6	chr4:147031600-147033000	Enhancers	Fetal Intestine Large	intestine
7	chr4:147031800-147032400	Enhancers	Monocytes-CD14+_RO01746	blood
8	chr4:147032200-147032800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr4:147032200-147032800	Enhancers	GM12878-XiMat	blood
10	chr4:147032200-147032800	Enhancers	HepG2	liver

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