Variant report

Variant	rs3098856
Chromosome Location	chr4:78510919-78510920
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11946019	1.00[EUR][1000 genomes]
rs171388	0.83[CHD][hapmap]
rs2866440	1.00[EUR][1000 genomes]
rs3098855	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3113354	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs920666	1.00[CEU][hapmap];1.00[GIH][hapmap];0.85[MEX][hapmap];0.97[TSI][hapmap];0.99[EUR][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	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:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3098856	CXCL2	cis	parietal	SCAN
rs3098856	PRDM8	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:78508600-78513800	Weak transcription	Primary hematopoietic stem cells	blood
2	chr4:78508600-78514400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr4:78508600-78515200	Weak transcription	Spleen	Spleen
4	chr4:78508800-78514200	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr4:78509200-78513800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr4:78510000-78513800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr4:78510200-78513800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr4:78510600-78514000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr4:78510800-78512200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr4:78510800-78512200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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

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