Variant report

Variant	rs9357909
Chromosome Location	chr6:13839345-13839346
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs1204180	0.96[ASN][1000 genomes]
rs1204184	0.82[EUR][1000 genomes]
rs12200710	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1924461	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6899735	0.89[ASW][hapmap];0.91[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.81[MKK][hapmap];0.91[TSI][hapmap];0.82[YRI][hapmap];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6903075	0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6904311	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6924753	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9367682	0.89[AFR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9370526	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3475107	chr6:13834840-13863839	Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	esv3475109	chr6:13835023-13863759	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs9357909	C8orf86	trans	cerebellum	SCAN
rs9357909	GFOD1	cis	cerebellum	SCAN
rs9357909	FAM8A1	cis	parietal	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13837000-13841600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:13837000-13841800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr6:13838200-13839600	Enhancers	K562	blood
4	chr6:13838600-13839600	Enhancers	Fetal Intestine Large	intestine
5	chr6:13838600-13839800	Enhancers	Fetal Lung	lung
6	chr6:13838600-13840600	Enhancers	Fetal Thymus	thymus
7	chr6:13839000-13839400	Enhancers	Adipose Nuclei	Adipose
8	chr6:13839200-13839400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr6:13839200-13847200	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr6:13839200-13847200	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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