Variant report

Variant	rs8024924
Chromosome Location	chr15:33921331-33921332
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11630976	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs11632118	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];0.85[YRI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11634480	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11636955	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11638664	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74005907	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74005909	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74005911	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74005913	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74005915	0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs937304	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs9806579	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs9806592	1.00[CEU][hapmap];0.89[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	nsv1043046	chr15:33714908-34321330	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	esv34037	chr15:33732616-34049083	Enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs8024924	MTNR1A	trans	brain	seeQTL

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33859200-33923200	Weak transcription	Fetal Muscle Trunk	muscle
2	chr15:33873000-33923400	Weak transcription	Brain Anterior Caudate	brain
3	chr15:33891800-33921800	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr15:33895600-33922800	Weak transcription	Aorta	Aorta
5	chr15:33913000-33932200	Weak transcription	Brain Hippocampus Middle	brain
6	chr15:33915000-33959400	Weak transcription	Colon Smooth Muscle	Colon
7	chr15:33915400-33925800	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr15:33915400-33925800	Weak transcription	Rectal Smooth Muscle	rectum
9	chr15:33916400-33922800	Weak transcription	Fetal Muscle Leg	muscle
10	chr15:33918400-33924200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr15:33919400-33923200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr15:33920200-33921400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr15:33920200-33927400	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr15:33920400-33931200	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr15:33920800-33923200	Weak transcription	Brain Substantia Nigra	brain
16	chr15:33920800-33931000	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr15:33921000-33923600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr15:33921000-33925600	Weak transcription	Ovary	ovary
19	chr15:33921200-33928800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr15:33921200-33928800	Strong transcription	Stomach Smooth Muscle	stomach

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