Variant report

Variant	rs2086180
Chromosome Location	chr3:140845584-140845585
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11919846	0.86[EUR][1000 genomes]
rs11919859	0.86[EUR][1000 genomes]
rs11925565	0.85[EUR][1000 genomes]
rs11927097	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1365631	0.85[EUR][1000 genomes]
rs35816243	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4683391	0.85[EUR][1000 genomes]
rs4683392	0.83[EUR][1000 genomes]
rs4683393	0.83[EUR][1000 genomes]
rs4683394	0.83[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4683546	0.89[TSI][hapmap]
rs4683547	0.82[EUR][1000 genomes]
rs4683548	0.82[EUR][1000 genomes]
rs4683549	0.85[EUR][1000 genomes]
rs4683550	0.85[EUR][1000 genomes]
rs4683552	0.86[EUR][1000 genomes]
rs4683558	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs59179278	0.85[EUR][1000 genomes]
rs59276022	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62283579	0.81[EUR][1000 genomes]
rs62283580	0.85[EUR][1000 genomes]
rs62283582	0.85[EUR][1000 genomes]
rs62283585	0.86[EUR][1000 genomes]
rs62283586	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62283587	0.86[EUR][1000 genomes]
rs62283588	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62283592	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62283593	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62283595	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62283596	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62283597	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62283598	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62283599	0.86[ASN][1000 genomes]
rs62283600	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62283603	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62283605	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6650888	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72980182	0.82[EUR][1000 genomes]
rs72980194	0.86[EUR][1000 genomes]
rs72981978	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72981996	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2086180	PDK1	trans	parietal	SCAN
rs2086180	SLC9A9	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:140823800-140846800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr3:140841400-140846600	Enhancers	Pancreas	Pancrea
3	chr3:140841800-140846000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:140841800-140846000	Weak transcription	Dnd41	blood
5	chr3:140841800-140846200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr3:140841800-140846400	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr3:140843400-140847800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr3:140843600-140845800	Weak transcription	Right Ventricle	heart
9	chr3:140843800-140845600	Weak transcription	Fetal Heart	heart
10	chr3:140843800-140845600	Weak transcription	Left Ventricle	heart
11	chr3:140844000-140846000	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr3:140844600-140846000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr3:140845000-140850000	Enhancers	Fetal Muscle Leg	muscle
14	chr3:140845200-140845800	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr3:140845200-140846000	Genic enhancers	Fetal Muscle Trunk	muscle
16	chr3:140845200-140846200	Strong transcription	Cortex derived primary cultured neurospheres	brain
17	chr3:140845200-140847800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr3:140845400-140848200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood

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