Variant report

Variant	rs7166876
Chromosome Location	chr15:57079417-57079418
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10450961	0.85[AMR][1000 genomes]
rs10518871	0.87[CEU][hapmap]
rs10518878	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10851612	0.80[CEU][hapmap]
rs11071290	0.88[EUR][1000 genomes]
rs1115019	0.80[CEU][hapmap]
rs11856432	0.86[EUR][1000 genomes]
rs13379960	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1430819	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1441236	0.86[CEU][hapmap]
rs1612205	0.84[ASN][1000 genomes]
rs1647378	0.85[ASN][1000 genomes]
rs1647392	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1657922	0.80[CEU][hapmap]
rs1657934	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1657935	0.88[ASN][1000 genomes]
rs1657936	0.88[ASN][1000 genomes]
rs1657937	0.88[ASN][1000 genomes]
rs1657938	0.88[ASN][1000 genomes]
rs1657939	0.88[ASN][1000 genomes]
rs1660951	0.88[ASN][1000 genomes]
rs16977079	0.92[ASN][1000 genomes]
rs2128171	0.87[CEU][hapmap]
rs2161933	0.80[EUR][1000 genomes]
rs2278613	0.87[CEU][hapmap]
rs28437201	0.89[EUR][1000 genomes]
rs28568712	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28609621	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28736360	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4313751	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4774893	0.87[ASN][1000 genomes]
rs4774895	0.87[ASN][1000 genomes]
rs56965085	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6493882	0.86[CEU][hapmap]
rs6493886	0.93[CEU][hapmap];0.88[EUR][1000 genomes]
rs6493892	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6493893	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6493894	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs68083905	0.82[ASN][1000 genomes]
rs7163302	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7164095	0.86[CEU][hapmap]
rs7173137	0.86[EUR][1000 genomes]
rs7175191	0.93[CEU][hapmap]
rs7178196	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7182691	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7359253	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs8026149	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8042606	0.83[EUR][1000 genomes]
rs9919955	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3422474	chr15:56867190-57244330	Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv569576	chr15:57012816-57126917	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv833020	chr15:57055947-57216068	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	esv3429746	chr15:57077560-57079758	Weak transcription Enhancers Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7166876	TCF12	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57073000-57086200	Weak transcription	Aorta	Aorta
2	chr15:57079000-57079600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
3	chr15:57079200-57079600	Active TSS	NHDF-Ad	bronchial
4	chr15:57079400-57079600	Flanking Active TSS	GM12878-XiMat	blood

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