Variant report

Variant	rs824090
Chromosome Location	chr3:135167696-135167697
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs12494120	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs711942	0.82[EUR][1000 genomes]
rs711956	0.89[EUR][1000 genomes]
rs711958	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs711959	0.90[EUR][1000 genomes]
rs711961	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs746408	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs823978	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs824086	0.91[EUR][1000 genomes]
rs824088	0.90[EUR][1000 genomes]
rs824091	0.93[EUR][1000 genomes]
rs824093	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs824099	0.94[EUR][1000 genomes]
rs824100	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs844029	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs850699	0.91[EUR][1000 genomes]
rs941132	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9837324	0.98[EUR][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	nsv460860	chr3:135107678-135769006	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv591829	chr3:135107678-135769006	Flanking Active TSS Strong transcription Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs824090	EPHB1	cis	parietal	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135165200-135174400	Weak transcription	Spleen	Spleen
2	chr3:135166200-135168400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr3:135166400-135168800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr3:135166600-135168200	Enhancers	Primary neutrophils fromperipheralblood	blood
5	chr3:135167000-135168000	Enhancers	Primary hematopoietic stem cells	blood
6	chr3:135167400-135169800	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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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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