Variant report

Variant	rs339694
Chromosome Location	chr3:42737879-42737880
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11079	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12487055	0.84[JPT][hapmap];0.85[ASN][1000 genomes]
rs13072026	0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs2240860	0.83[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs2290973	0.91[CEU][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs339681	0.83[JPT][hapmap]
rs339693	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs339695	0.97[EUR][1000 genomes]
rs339696	0.97[EUR][1000 genomes]
rs339697	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34378441	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35659560	0.85[ASN][1000 genomes]
rs3846062	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3916333	0.85[ASN][1000 genomes]
rs61163642	0.85[ASN][1000 genomes]
rs6779396	0.85[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs339694	CCDC13	cis	Thyroid	GTEx
rs339694	CCDC13-AS1	cis	Thyroid	GTEx

Chromatin state (count:14 , 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	chr3:42734400-42738200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr3:42734800-42740800	Weak transcription	Brain Cingulate Gyrus	brain
6	chr3:42736600-42738200	Strong transcription	Brain Hippocampus Middle	brain
7	chr3:42736800-42738600	Enhancers	Fetal Heart	heart
8	chr3:42736800-42738800	Genic enhancers	Skeletal Muscle Male	skeletal muscle
9	chr3:42737000-42740800	Enhancers	Right Ventricle	heart
10	chr3:42737600-42738400	Strong transcription	Brain Anterior Caudate	brain
11	chr3:42737600-42738400	Strong transcription	Brain Substantia Nigra	brain
12	chr3:42737600-42738800	Genic enhancers	Skeletal Muscle Female	skeletal muscle
13	chr3:42737800-42738600	Weak transcription	Right Atrium	heart
14	chr3:42737800-42739200	Enhancers	Left Ventricle	heart

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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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