Variant report

Variant	rs10934131
Chromosome Location	chr3:111770948-111770949
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10934132	0.81[CEU][hapmap];0.93[JPT][hapmap]
rs10934133	0.81[CEU][hapmap];0.93[JPT][hapmap]
rs11711987	0.81[CEU][hapmap];0.93[JPT][hapmap]
rs11713084	0.81[CEU][hapmap];0.93[JPT][hapmap]
rs11713897	0.80[CEU][hapmap];0.93[JPT][hapmap]
rs11716665	0.80[CEU][hapmap];0.80[JPT][hapmap]
rs11720631	0.80[CEU][hapmap];0.93[JPT][hapmap]
rs11927988	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11928025	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12489437	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16859115	0.80[CEU][hapmap];0.93[JPT][hapmap]
rs16859126	0.81[CEU][hapmap];0.93[JPT][hapmap]
rs17443498	0.81[CEU][hapmap];0.93[JPT][hapmap]
rs17502804	0.81[CEU][hapmap];0.93[JPT][hapmap]
rs4682081	0.85[CEU][hapmap];0.92[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.87[EUR][1000 genomes]
rs4682351	0.81[CEU][hapmap];0.93[JPT][hapmap]
rs4682352	1.00[JPT][hapmap]
rs4682353	0.81[CEU][hapmap];0.93[JPT][hapmap]
rs56071730	0.83[EUR][1000 genomes]
rs7622025	1.00[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.96[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7625159	0.96[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7630245	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs774768	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs920708	0.81[CEU][hapmap];0.93[JPT][hapmap]
rs9288935	0.80[CEU][hapmap];0.93[JPT][hapmap]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10934131	GCET2	cis	cerebellum	SCAN
rs10934131	CD200	cis	parietal	SCAN
rs10934131	SLC35A5	cis	parietal	SCAN

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111762400-111771000	Weak transcription	Gastric	stomach
2	chr3:111763200-111772800	Weak transcription	Thymus	Thymus
3	chr3:111768000-111771000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr3:111768000-111771200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr3:111768000-111779800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr3:111768400-111771000	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr3:111768400-111771200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr3:111768600-111771400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr3:111768600-111772800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr3:111770600-111772600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr3:111770800-111771000	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr3:111770800-111771400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr3:111770800-111772000	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr3:111770800-111772800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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