Variant report

Variant	rs2459415
Chromosome Location	chr10:37411293-37411294
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1148257	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1200882	0.84[AMR][1000 genomes]
rs1200883	0.81[AMR][1000 genomes]
rs1200920	1.00[ASN][1000 genomes]
rs1200931	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap]
rs1711245	0.82[ASN][1000 genomes]
rs1767345	0.81[AMR][1000 genomes]
rs1767356	0.81[AMR][1000 genomes]
rs1767357	0.84[AMR][1000 genomes]
rs1767360	0.83[AMR][1000 genomes]
rs2459444	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2486110	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2486111	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2486116	0.82[ASN][1000 genomes]
rs2486117	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2505139	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2505140	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2505141	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2505142	0.81[EUR][1000 genomes]
rs2505144	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2944452	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9664406	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758213	chr10:37285763-37625699	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	esv2759742	chr10:37285763-37625699	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv831832	chr10:37366131-37563758	Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv947845	chr10:37386444-37411634	Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region	1 gene(s)	inside rSNPs	diseases
5	esv1817816	chr10:37399856-37484107	Bivalent/Poised TSS Weak transcription Bivalent Enhancer Active TSS Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	esv1800211	chr10:37401669-37484107	Enhancers Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	esv1813707	chr10:37401669-37484107	Bivalent Enhancer Enhancers ZNF genes & repeats Active TSS Weak transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2459415	GJD4	cis	cerebellum	SCAN
rs2459415	CCNY	cis	parietal	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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