Variant report

Variant	rs17079625
Chromosome Location	chr6:118326206-118326207
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs13198431	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13211121	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1338971	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2211099	0.85[AMR][1000 genomes]
rs2355798	0.87[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34358304	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34729097	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs36172496	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4113075	0.95[CEU][hapmap];0.86[JPT][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4120871	0.87[CEU][hapmap];0.86[CHB][hapmap];0.92[JPT][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4245490	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4434501	0.82[AMR][1000 genomes]
rs4945604	0.81[ASW][hapmap];0.83[CEU][hapmap];0.92[CHB][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.91[TSI][hapmap];0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4946312	0.83[CEU][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.95[MEX][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs5002415	0.95[CEU][hapmap];0.91[CHD][hapmap];0.84[GIH][hapmap];0.92[JPT][hapmap];0.95[MEX][hapmap];0.86[TSI][hapmap];0.85[EUR][1000 genomes]
rs6914871	0.82[ASW][hapmap];0.82[CEU][hapmap];0.92[CHB][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.91[TSI][hapmap];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6928714	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6935258	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6935516	0.87[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap]
rs7744988	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9374693	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9374698	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9385026	0.85[AMR][1000 genomes]
rs9387532	0.82[ASW][hapmap];0.83[CEU][hapmap];0.92[CHB][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.91[TSI][hapmap];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9401043	0.87[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9401045	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9481751	0.95[CEU][hapmap];0.92[JPT][hapmap];0.91[MEX][hapmap];0.81[TSI][hapmap];0.84[EUR][1000 genomes]
rs9489290	0.82[EUR][1000 genomes]
rs9766457	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9968789	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530526	chr6:118027339-118718476	Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17079625	SLC35F1	cis	cerebellum	SCAN
rs17079625	PLN	cis	cerebellum	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:118323400-118332800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr6:118324600-118332000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:118324800-118332600	Weak transcription	Cortex derived primary cultured neurospheres	brain

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