Variant report

Variant	rs17002731
Chromosome Location	chr4:78513987-78513988
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1052563	0.92[CEU][hapmap];0.82[TSI][hapmap];0.92[EUR][1000 genomes]
rs11730731	0.92[EUR][1000 genomes]
rs1500503	1.00[JPT][hapmap]
rs1604153	1.00[JPT][hapmap]
rs17002711	1.00[JPT][hapmap]
rs17002732	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17002734	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.80[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17002735	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1875266	0.92[CEU][hapmap];0.83[GIH][hapmap];0.87[TSI][hapmap];0.94[EUR][1000 genomes]
rs41349845	1.00[CEU][hapmap];1.00[GIH][hapmap];0.93[TSI][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41439345	1.00[CEU][hapmap];1.00[GIH][hapmap];0.93[TSI][hapmap];1.00[EUR][1000 genomes]
rs41530748	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs57024191	0.87[ASN][1000 genomes]
rs57142024	0.87[ASN][1000 genomes]
rs57792330	0.87[ASN][1000 genomes]
rs58647525	0.87[ASN][1000 genomes]
rs59040560	0.87[ASN][1000 genomes]
rs59647595	0.87[ASN][1000 genomes]
rs61185792	0.87[ASN][1000 genomes]
rs62304086	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62304089	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62304092	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62304095	0.94[EUR][1000 genomes]
rs62304096	0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62304097	0.92[EUR][1000 genomes]
rs62304099	0.92[EUR][1000 genomes]
rs6852489	0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72861970	0.87[ASN][1000 genomes]
rs72861971	0.87[ASN][1000 genomes]
rs72861972	0.87[ASN][1000 genomes]
rs72861973	0.87[ASN][1000 genomes]
rs72861975	0.87[ASN][1000 genomes]
rs7669299	1.00[JPT][hapmap]

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	nsv829975	chr4:78426210-78565198	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17002731	PRDM8	cis	parietal	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:78508600-78514400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr4:78508600-78515200	Weak transcription	Spleen	Spleen
3	chr4:78508800-78514200	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr4:78510600-78514000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr4:78511400-78514200	Enhancers	Liver	Liver
6	chr4:78511800-78515200	Weak transcription	Right Atrium	heart
7	chr4:78512200-78515200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr4:78513800-78514200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr4:78513800-78514800	Enhancers	Primary hematopoietic stem cells	blood
10	chr4:78513800-78514800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
11	chr4:78513800-78515200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr4:78513800-78516200	Enhancers	Primary T cells fromperipheralblood	blood

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