Variant report

Variant	rs9725216
Chromosome Location	chr1:224886492-224886493
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:224862745..224864541-chr1:224886304..224888766,2	K562	blood:
2	chr1:224885130..224887925-chr1:224889858..224891472,2	MCF-7	breast:
3	chr1:224884331..224887289-chr1:224890034..224891821,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10158430	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10458376	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10799276	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10915692	0.90[MEX][hapmap];0.86[TSI][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12030079	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12030696	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12032349	0.82[TSI][hapmap];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12041370	0.90[MEX][hapmap];0.85[TSI][hapmap];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12046028	0.80[MEX][hapmap];0.85[TSI][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1499281	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1499282	0.90[MEX][hapmap];0.85[TSI][hapmap];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17513562	0.91[AMR][1000 genomes]
rs17514252	0.90[MEX][hapmap];0.86[TSI][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17514370	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17573714	0.86[TSI][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1846501	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs298736	0.82[EUR][1000 genomes]
rs3738363	0.80[MEX][hapmap];0.86[TSI][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3738365	0.80[MEX][hapmap];0.86[TSI][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4564105	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4653593	0.93[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.87[GIH][hapmap];0.87[LWK][hapmap];0.82[MEX][hapmap];0.93[MKK][hapmap];0.96[TSI][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55744530	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs56121354	0.93[AMR][1000 genomes]
rs56228106	0.93[AMR][1000 genomes]
rs56365526	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs57395227	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs58715712	0.91[AMR][1000 genomes]
rs59962884	0.91[AMR][1000 genomes]
rs6656922	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6665737	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs722849	0.86[TSI][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7513639	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7521221	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7525096	0.90[MEX][hapmap];0.86[TSI][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7537218	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7547239	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7549891	0.80[MEX][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs930323	0.90[MEX][hapmap];0.86[TSI][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9660759	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9660787	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9661696	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9661955	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9662179	0.90[MEX][hapmap];0.95[AMR][1000 genomes]
rs9662190	0.89[MEX][hapmap];0.82[TSI][hapmap];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9725225	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9725216	RAB3GAP2	cis	cerebellum	SCAN

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:224862400-224902000	Weak transcription	Pancreas	Pancrea
2	chr1:224875600-224888400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr1:224877600-224891600	Weak transcription	Dnd41	blood
4	chr1:224881400-224895400	Weak transcription	Ovary	ovary
5	chr1:224884000-224887000	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr1:224884200-224887400	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr1:224884800-224886800	Enhancers	Brain Inferior Temporal Lobe	brain
8	chr1:224885000-224886600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr1:224885000-224920200	Weak transcription	Right Atrium	heart
10	chr1:224885200-224891200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr1:224885600-224895200	Weak transcription	NH-A	brain
12	chr1:224885800-224886600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr1:224885800-224891200	Weak transcription	NHLF	lung
14	chr1:224885800-224891400	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr1:224885800-224895200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr1:224886000-224888000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr1:224886000-224890200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr1:224886200-224887000	Strong transcription	NHDF-Ad	bronchial
19	chr1:224886200-224888400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr1:224886200-224891600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr1:224886200-224891600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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