Variant report

Variant	rs11014144
Chromosome Location	chr10:18704776-18704777
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10508561	0.84[GIH][hapmap]
rs11014026	1.00[JPT][hapmap]
rs11014084	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11014156	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11014175	0.94[GIH][hapmap];0.89[JPT][hapmap];0.87[MEX][hapmap];0.87[TSI][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11014188	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11014208	0.85[ASN][1000 genomes]
rs11014209	0.81[JPT][hapmap]
rs11014210	1.00[ASW][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.80[MEX][hapmap];0.86[TSI][hapmap];0.85[ASN][1000 genomes]
rs11014211	0.80[CEU][hapmap];0.80[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11014299	0.85[CHB][hapmap]
rs12049663	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1325992	0.82[CEU][hapmap]
rs16917244	0.87[LWK][hapmap]
rs17690664	1.00[ASW][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3750592	0.85[JPT][hapmap]
rs3829133	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61839258	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61841960	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6482438	0.85[ASN][1000 genomes]
rs7096168	0.89[ASN][1000 genomes]
rs72786093	0.85[ASN][1000 genomes]
rs7477742	0.85[JPT][hapmap]

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	nsv550042	chr10:18683267-18994583	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1053675	chr10:18703895-18722912	Enhancers Weak transcription Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs11014144	TRDMT1	cis	parietal	SCAN
rs11014144	CACNB2	cis	cerebellum	SCAN
rs11014144	NSUN6	cis	cerebellum	SCAN
rs11014144	SUV39H2	cis	parietal	SCAN
rs11014144	ARHGEF12	trans	cerebellum	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18690000-18705600	Weak transcription	Aorta	Aorta
2	chr10:18690200-18713000	Weak transcription	Ovary	ovary
3	chr10:18692000-18712600	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr10:18692600-18707600	Weak transcription	Brain Angular Gyrus	brain
5	chr10:18701000-18705800	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr10:18702800-18707600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr10:18703000-18705400	Weak transcription	Right Ventricle	heart
8	chr10:18703200-18711200	Weak transcription	Stomach Smooth Muscle	stomach
9	chr10:18703600-18707000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr10:18703600-18707000	Weak transcription	Left Ventricle	heart
11	chr10:18703600-18732000	Weak transcription	Pancreas	Pancrea
12	chr10:18703800-18704800	Enhancers	Fetal Heart	heart

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