Variant report

Variant	rs2290973
Chromosome Location	chr3:42738297-42738298
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11079	0.92[CEU][hapmap];0.80[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.83[ASN][1000 genomes]
rs12487055	0.95[JPT][hapmap]
rs13072026	0.95[JPT][hapmap]
rs2240860	0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs339681	0.85[JPT][hapmap]
rs339693	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs339694	0.91[CEU][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs339697	0.92[CEU][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs34378441	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3846062	0.92[CEU][hapmap];0.85[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.87[ASN][1000 genomes]
rs61163642	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs2290973	XIRP1	cis	cerebellum	SCAN
rs2290973	EXOSC7	cis	cerebellum	SCAN
rs2290973	HHATL	cis	cerebellum	SCAN
rs2290973	FYCO1	cis	cerebellum	SCAN
rs2290973	HHATL	cis	parietal	SCAN
rs2290973	HIGD1A	cis	parietal	SCAN

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:42728000-42742800	Weak transcription	Gastric	stomach
2	chr3:42733600-42740800	Weak transcription	Brain Angular Gyrus	brain
3	chr3:42734200-42738800	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr3:42734800-42740800	Weak transcription	Brain Cingulate Gyrus	brain
5	chr3:42736800-42738600	Enhancers	Fetal Heart	heart
6	chr3:42736800-42738800	Genic enhancers	Skeletal Muscle Male	skeletal muscle
7	chr3:42737000-42740800	Enhancers	Right Ventricle	heart
8	chr3:42737600-42738400	Strong transcription	Brain Anterior Caudate	brain
9	chr3:42737600-42738400	Strong transcription	Brain Substantia Nigra	brain
10	chr3:42737600-42738800	Genic enhancers	Skeletal Muscle Female	skeletal muscle
11	chr3:42737800-42738600	Weak transcription	Right Atrium	heart
12	chr3:42737800-42739200	Enhancers	Left Ventricle	heart
13	chr3:42738000-42738800	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr3:42738200-42738400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr3:42738200-42739200	Weak transcription	Brain Hippocampus Middle	brain

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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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