Variant report

Variant	rs10214466
Chromosome Location	chr6:39432643-39432644
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10046447	1.00[CHB][hapmap]
rs10214720	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17353166	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs4549608	1.00[ASN][1000 genomes]
rs4714256	0.85[LWK][hapmap]
rs56682211	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57000749	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57013484	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57077164	0.88[ASN][1000 genomes]
rs57310726	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57697326	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57924933	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58720104	1.00[ASN][1000 genomes]
rs61342855	1.00[ASN][1000 genomes]
rs62402247	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62402248	1.00[ASN][1000 genomes]
rs62402249	1.00[ASN][1000 genomes]
rs62402255	0.94[ASN][1000 genomes]
rs62403274	1.00[ASN][1000 genomes]
rs62403275	1.00[ASN][1000 genomes]
rs62403281	0.88[ASN][1000 genomes]
rs6930018	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs722249	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap]
rs722250	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap]
rs73412749	1.00[ASN][1000 genomes]
rs7738165	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs875730	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9296300	0.87[LWK][hapmap]
rs9471112	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap]
rs9471117	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[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	nsv885822	chr6:39327708-39721216	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv428145	chr6:39404129-39460795	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv885823	chr6:39421715-39526867	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs10214466	CCND3	cis	cerebellum	SCAN
rs10214466	FRS3	cis	cerebellum	SCAN
rs10214466	GUCA1A	cis	parietal	SCAN
rs10214466	PRMT5	trans	cerebellum	SCAN
rs10214466	ZFAND3	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39432400-39433000	Enhancers	Sigmoid Colon	Sigmoid Colon

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