Variant report

Variant	rs2745440
Chromosome Location	chr6:133017706-133017707
allele	A/G
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	SETDB1	chr6:133017326-133017901	U2OS	brain:	n/a	n/a
2	KAP1	chr6:133017561-133017821	HEK293	kidney:	n/a	n/a

Variant related genes	Relation type
CCNG1P1	TF binding region

Extended variants
information (count: 61 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs1044593	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]
rs1073954	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12195735	0.82[CEU][hapmap]
rs2050154	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2223613	0.95[CEU][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2247269	0.91[CEU][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2247284	0.91[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2247285	0.91[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2251449	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2251455	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2262437	0.91[CEU][hapmap];0.89[YRI][hapmap];0.90[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2262438	0.91[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2300077	0.87[CEU][hapmap];0.80[EUR][1000 genomes]
rs2327275	0.89[EUR][1000 genomes]
rs2745426	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2745427	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]
rs2745429	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2745430	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2745431	0.87[CEU][hapmap];0.85[EUR][1000 genomes]
rs2745435	0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2745436	0.91[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2745437	0.91[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2745439	0.91[CEU][hapmap];0.89[YRI][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2745441	0.91[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2745442	0.91[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2745443	0.91[CEU][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs2745444	0.95[CEU][hapmap];0.89[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2745445	0.94[CEU][hapmap];0.88[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2840812	0.89[ASN][1000 genomes]
rs2840813	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2840815	0.91[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2840816	0.91[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2840817	0.91[CEU][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs2840818	0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2840819	0.89[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs2840820	0.91[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2840821	0.91[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2840822	0.91[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2840823	0.91[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2840824	0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2840825	0.95[CEU][hapmap];0.89[JPT][hapmap];0.82[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2840826	0.91[CEU][hapmap];0.89[EUR][1000 genomes]
rs3798792	0.87[CEU][hapmap];0.80[EUR][1000 genomes]
rs3823026	1.00[CEU][hapmap];0.83[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4897600	0.88[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs4897604	0.87[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs4897605	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4897609	0.80[EUR][1000 genomes]
rs4897612	0.87[CEU][hapmap]
rs6936833	0.91[CEU][hapmap];0.89[EUR][1000 genomes]
rs6938196	0.89[EUR][1000 genomes]
rs6941705	0.81[CEU][hapmap];0.84[EUR][1000 genomes]
rs7742200	0.80[EUR][1000 genomes]
rs909975	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs909977	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9389027	0.91[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9399038	0.91[CEU][hapmap];0.89[EUR][1000 genomes]
rs990499	0.91[CEU][hapmap];0.89[EUR][1000 genomes]
rs990500	0.91[CEU][hapmap];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532069	chr6:132776411-133462292	Active TSS Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv1015742	chr6:132933666-133285852	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	71 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2745440	VNN1	cis	Whole Blood	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133015000-133017800	Weak transcription	Primary monocytes fromperipheralblood	blood
2	chr6:133015200-133019400	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr6:133015200-133019800	Weak transcription	Stomach Mucosa	stomach
4	chr6:133015400-133021200	Strong transcription	Liver	Liver
5	chr6:133017000-133018000	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
6	chr6:133017400-133017800	ZNF genes & repeats	Duodenum Mucosa	Duodenum

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