Variant report

Variant	rs41859
Chromosome Location	chr7:69006876-69006877
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10265771	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11762075	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11771695	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11983891	0.81[ASN][1000 genomes]
rs12671695	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2098116	0.81[ASN][1000 genomes]
rs2533426	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2533441	0.81[ASN][1000 genomes]
rs2533442	0.81[ASN][1000 genomes]
rs2533448	0.81[ASN][1000 genomes]
rs2533451	0.81[ASN][1000 genomes]
rs2533452	0.81[ASN][1000 genomes]
rs2533454	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2533455	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2533457	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2851489	0.81[ASN][1000 genomes]
rs2851490	0.81[ASN][1000 genomes]
rs2851497	0.81[ASN][1000 genomes]
rs2851501	0.81[ASN][1000 genomes]
rs2851508	0.81[ASN][1000 genomes]
rs2851510	0.81[ASN][1000 genomes]
rs2851511	0.81[ASN][1000 genomes]
rs2851513	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2865116	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3886905	0.81[ASN][1000 genomes]
rs41849	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs41852	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs41856	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs41860	0.89[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs41861	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs41866	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs41868	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs5005279	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap]
rs585282	0.90[CHB][hapmap];0.94[JPT][hapmap];0.82[YRI][hapmap]
rs595681	0.95[CHB][hapmap];0.91[CHD][hapmap];0.94[JPT][hapmap];0.84[LWK][hapmap];0.91[MEX][hapmap];0.81[MKK][hapmap];0.86[TSI][hapmap];0.90[YRI][hapmap]
rs610930	0.95[CHB][hapmap];0.94[CHD][hapmap];0.94[JPT][hapmap];0.84[LWK][hapmap];0.91[MEX][hapmap];0.81[MKK][hapmap];0.86[TSI][hapmap];0.90[YRI][hapmap]
rs61135042	0.81[ASN][1000 genomes]
rs62454902	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62454903	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6944645	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6974900	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7786584	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7800272	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023885	chr7:68894896-69158290	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv538915	chr7:68894896-69158290	Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv916011	chr7:68942155-69330800	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs41859	VKORC1L1	cis	parietal	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:68999800-69007400	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr7:69000000-69014600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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