Variant report

Variant	rs9516867
Chromosome Location	chr13:97861150-97861151
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10220223	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1410758	0.90[ASN][1000 genomes]
rs17235537	0.90[ASN][1000 genomes]
rs17235551	0.92[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs17301278	0.86[ASN][1000 genomes]
rs17301299	0.90[ASN][1000 genomes]
rs17301306	0.90[ASN][1000 genomes]
rs3825522	0.92[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4120984	0.90[ASN][1000 genomes]
rs5024203	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57348783	0.86[ASN][1000 genomes]
rs57806253	0.86[ASN][1000 genomes]
rs61107763	0.86[ASN][1000 genomes]
rs6491338	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6491339	0.92[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs6491341	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7317904	0.86[ASN][1000 genomes]
rs7338056	0.85[CEU][hapmap];0.84[CHD][hapmap];0.93[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.86[ASN][1000 genomes]
rs7983632	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7984898	0.91[ASN][1000 genomes]
rs7988998	0.86[ASN][1000 genomes]
rs7989356	0.86[ASN][1000 genomes]
rs7990235	0.86[ASN][1000 genomes]
rs7990802	0.86[ASN][1000 genomes]
rs7991020	0.92[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7997476	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8000282	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.89[GIH][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9513214	0.86[ASN][1000 genomes]
rs9513215	0.86[ASN][1000 genomes]
rs9513216	0.86[ASN][1000 genomes]
rs9513219	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9513221	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.89[GIH][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9516845	0.86[ASN][1000 genomes]
rs9516846	0.84[ASN][1000 genomes]
rs9516847	0.86[ASN][1000 genomes]
rs9516848	0.85[ASN][1000 genomes]
rs9516849	0.86[ASN][1000 genomes]
rs9516850	0.86[ASN][1000 genomes]
rs9516853	0.86[ASN][1000 genomes]
rs9516857	0.87[MKK][hapmap]
rs9516864	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9516870	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];0.95[TSI][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9516871	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9516872	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9516873	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9584530	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9516867	GPC5	cis	parietal	SCAN
rs9516867	RAP2A	cis	parietal	SCAN

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:97853400-97861600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr13:97858400-97862600	Weak transcription	Brain Anterior Caudate	brain
3	chr13:97858600-97861600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr13:97858600-97862400	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr13:97858600-97863000	Weak transcription	HSMM	muscle
6	chr13:97858600-97864000	Weak transcription	HepG2	liver
7	chr13:97858600-97867200	Weak transcription	Hela-S3	cervix
8	chr13:97858800-97861800	Weak transcription	Brain Substantia Nigra	brain
9	chr13:97859000-97863000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr13:97859000-97863400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr13:97859200-97863600	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr13:97859400-97863000	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr13:97859400-97864400	Weak transcription	Stomach Mucosa	stomach
14	chr13:97859800-97863600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr13:97860400-97864200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr13:97860400-97864200	Weak transcription	Fetal Intestine Small	intestine
17	chr13:97861000-97861400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr13:97861000-97862000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr13:97861000-97863800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links