Variant report

Variant	rs12802185
Chromosome Location	chr11:121005464-121005465
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10892677	0.85[CHB][hapmap];0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs11218161	0.85[CHB][hapmap];0.82[JPT][hapmap];0.86[ASN][1000 genomes]
rs2186747	0.82[JPT][hapmap]
rs475731	0.89[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs480761	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs488766	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs520805	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.88[JPT][hapmap];0.85[MEX][hapmap];0.95[TSI][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs583842	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.88[JPT][hapmap];0.85[MEX][hapmap];0.95[TSI][hapmap];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs608818	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs612969	0.89[CHB][hapmap];0.94[CHD][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs617692	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs632121	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs633770	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs636575	1.00[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.88[JPT][hapmap];0.85[MEX][hapmap];0.95[TSI][hapmap];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs658494	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs659042	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];0.88[JPT][hapmap];0.85[MEX][hapmap];0.95[TSI][hapmap];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv524	chr11:120963503-121008167	Weak transcription ZNF genes & repeats Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12802185	TMEM25	cis	parietal	SCAN

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:120975800-121005600	Weak transcription	Right Ventricle	heart
2	chr11:120993200-121008000	Weak transcription	Stomach Smooth Muscle	stomach
3	chr11:120994000-121016200	Weak transcription	Brain Substantia Nigra	brain
4	chr11:120994400-121042400	Weak transcription	Brain Hippocampus Middle	brain
5	chr11:120996800-121016400	Weak transcription	Ovary	ovary
6	chr11:120996800-121037800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr11:120998400-121007800	Weak transcription	Fetal Brain Male	brain
8	chr11:120998800-121007800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr11:120998800-121009400	Weak transcription	Spleen	Spleen
10	chr11:120999000-121007800	Weak transcription	Gastric	stomach
11	chr11:120999000-121011200	Weak transcription	Aorta	Aorta
12	chr11:120999200-121016200	Weak transcription	Brain Cingulate Gyrus	brain
13	chr11:120999600-121007800	Weak transcription	Brain Germinal Matrix	brain
14	chr11:120999600-121041600	Weak transcription	Brain Anterior Caudate	brain
15	chr11:121000000-121025200	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr11:121001000-121008400	Weak transcription	Fetal Brain Female	brain
17	chr11:121001200-121007800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr11:121001200-121012000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr11:121001400-121028000	Weak transcription	Fetal Stomach	stomach
20	chr11:121003200-121005600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr11:121003200-121007800	Weak transcription	Pancreas	Pancrea
22	chr11:121004400-121007000	Enhancers	Fetal Muscle Leg	muscle
23	chr11:121005000-121006000	Enhancers	Right Atrium	heart
24	chr11:121005000-121006600	Enhancers	Fetal Heart	heart
25	chr11:121005200-121006400	Enhancers	Skeletal Muscle Male	skeletal muscle
26	chr11:121005200-121006600	Enhancers	HSMMtube	muscle
27	chr11:121005400-121005600	Enhancers	Breast Myoepithelial Primary Cells	Breast
28	chr11:121005400-121005800	Enhancers	Left Ventricle	heart
29	chr11:121005400-121006000	Enhancers	Skeletal Muscle Female	skeletal muscle

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