Variant report

Variant	rs258612
Chromosome Location	chr5:75365799-75365800
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs13162056	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13174796	0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1393205	0.99[EUR][1000 genomes]
rs1423103	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1423104	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1501905	0.82[CHB][hapmap];0.88[CHD][hapmap];0.80[MEX][hapmap];0.81[TSI][hapmap]
rs1553310	0.96[EUR][1000 genomes]
rs183766	0.92[CHD][hapmap]
rs183767	0.87[CEU][hapmap];0.80[CHB][hapmap];0.80[JPT][hapmap]
rs187285	0.87[CEU][hapmap];0.80[CHB][hapmap]
rs1910051	0.96[EUR][1000 genomes]
rs2254153	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2547455	0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2547456	0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs258613	0.81[CEU][hapmap];0.82[CHB][hapmap];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs258614	0.81[CEU][hapmap];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs258621	0.84[CEU][hapmap];0.82[CHB][hapmap]
rs2731732	0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2731733	0.92[EUR][1000 genomes]
rs2731735	0.81[CEU][hapmap];0.82[CHB][hapmap];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28620	0.88[CEU][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28621	0.84[CEU][hapmap];0.82[CHB][hapmap];0.91[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.92[MEX][hapmap];0.98[TSI][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2937705	0.81[GIH][hapmap];1.00[TSI][hapmap]
rs30191	1.00[CEU][hapmap];0.82[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs30192	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs30196	0.96[CEU][hapmap];0.82[CHB][hapmap];0.97[CHD][hapmap];0.86[GIH][hapmap];0.95[TSI][hapmap];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs30197	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs30198	0.84[CEU][hapmap];0.82[CHB][hapmap];0.92[CHD][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs30199	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs30202	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs30204	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs30205	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs30206	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs30249	0.92[EUR][1000 genomes]
rs7378518	0.95[EUR][1000 genomes]
rs7443455	0.99[EUR][1000 genomes]
rs993914	0.99[EUR][1000 genomes];0.85[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	nsv1027368	chr5:74759999-75663712	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv518475	chr5:74863041-75411804	Strong transcription Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv4883	chr5:75360926-75373963	Weak transcription Bivalent Enhancer Enhancers	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
4	nsv869885	chr5:75365786-75419656	Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs258612	ARSB	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:75365000-75366000	Enhancers	Fetal Brain Female	brain
2	chr5:75365600-75365800	Bivalent Enhancer	Fetal Brain Male	brain

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