Variant report

Variant	rs17794002
Chromosome Location	chr10:116519563-116519564
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11593472	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11597188	0.83[GIH][hapmap]
rs11598354	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12761207	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12761991	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12763449	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12763784	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12767625	0.81[EUR][1000 genomes]
rs12767713	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12783562	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12785140	0.88[ASN][1000 genomes]
rs17720374	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34105246	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34202625	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34366626	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34751270	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35736355	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35927479	0.88[ASN][1000 genomes]
rs36021781	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4752099	0.83[GIH][hapmap]
rs55633935	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58719367	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59254826	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61870569	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7073405	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7075095	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7080890	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7082250	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7092145	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs719894	0.88[ASN][1000 genomes]
rs7902647	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7919367	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7922771	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808325	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037308	chr10:116141946-116519765	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv540780	chr10:116141946-116519765	Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv949138	chr10:116311531-116874477	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	nsv1038050	chr10:116315109-116895719	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
5	nsv533027	chr10:116344641-116856352	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
6	esv3435429	chr10:116394152-117006347	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17794002	TRUB1	cis	parietal	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116513800-116527000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:116515000-116527400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr10:116515400-116521200	Weak transcription	Right Ventricle	heart
4	chr10:116515600-116521000	Weak transcription	Right Atrium	heart
5	chr10:116515600-116524400	Weak transcription	Adipose Nuclei	Adipose
6	chr10:116515600-116526200	Weak transcription	Fetal Intestine Small	intestine
7	chr10:116516200-116519600	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr10:116516600-116521800	Enhancers	Fetal Heart	heart
9	chr10:116517200-116521000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr10:116517800-116520800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr10:116518000-116521000	Weak transcription	Left Ventricle	heart
12	chr10:116518000-116526400	Weak transcription	Brain Anterior Caudate	brain
13	chr10:116518400-116521000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr10:116518400-116526400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr10:116518600-116519800	Weak transcription	Brain Cingulate Gyrus	brain
16	chr10:116518600-116521000	Weak transcription	Brain Hippocampus Middle	brain
17	chr10:116519400-116519600	Enhancers	Brain Substantia Nigra	brain

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