Variant report

Variant	rs3846062
Chromosome Location	chr3:42733667-42733668
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 5 )

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

rs_ID	r²[population]
rs11079	1.00[CEU][hapmap];0.94[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12487055	0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs13072026	0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs2240860	0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs2290973	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]
rs339681	0.85[JPT][hapmap]
rs339693	0.96[CEU][hapmap];0.89[TSI][hapmap];0.93[EUR][1000 genomes]
rs339694	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]
rs339695	0.95[EUR][1000 genomes]
rs339696	0.95[EUR][1000 genomes]
rs339697	1.00[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.95[TSI][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34378441	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35659560	0.82[ASN][1000 genomes]
rs3916333	0.82[ASN][1000 genomes]
rs61163642	0.92[ASN][1000 genomes]
rs6779396	0.82[ASN][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs3846062	HHATL	cis	cerebellum	SCAN
rs3846062	HHATL	cis	parietal	SCAN
rs3846062	TMEM42	cis	parietal	SCAN
rs3846062	EXOSC7	cis	cerebellum	SCAN
rs3846062	HIGD1A	cis	parietal	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:42725400-42737000	Weak transcription	Right Atrium	heart
2	chr3:42728000-42742800	Weak transcription	Gastric	stomach
3	chr3:42729400-42736800	Weak transcription	Fetal Heart	heart
4	chr3:42729800-42734200	Weak transcription	Right Ventricle	heart
5	chr3:42729800-42737800	Weak transcription	Left Ventricle	heart
6	chr3:42730400-42736600	Weak transcription	HSMMtube	muscle
7	chr3:42731600-42734200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
8	chr3:42732000-42734200	Enhancers	Brain Inferior Temporal Lobe	brain
9	chr3:42732200-42733800	Enhancers	Brain Hippocampus Middle	brain
10	chr3:42732200-42734800	Enhancers	Brain Cingulate Gyrus	brain
11	chr3:42732400-42734200	Enhancers	Brain Anterior Caudate	brain
12	chr3:42732400-42735400	Genic enhancers	Skeletal Muscle Female	skeletal muscle
13	chr3:42732800-42734000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr3:42732800-42735000	Genic enhancers	Skeletal Muscle Male	skeletal muscle
15	chr3:42733000-42733800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr3:42733400-42734600	Genic enhancers	Brain Substantia Nigra	brain
17	chr3:42733600-42735400	Strong transcription	Fetal Muscle Leg	muscle
18	chr3:42733600-42740800	Weak transcription	Brain Angular Gyrus	brain

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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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