Variant report

Variant	rs1330334
Chromosome Location	chr9:72204608-72204609
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10123008	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10746682	0.82[CEU][hapmap];0.84[CHB][hapmap]
rs10780527	0.84[CHB][hapmap];0.83[CHD][hapmap];0.93[JPT][hapmap];0.93[ASN][1000 genomes]
rs10780528	0.84[CHB][hapmap];0.83[CHD][hapmap];0.93[JPT][hapmap];0.93[ASN][1000 genomes]
rs10780539	0.82[CEU][hapmap];0.92[CHB][hapmap];0.95[CHD][hapmap];0.93[JPT][hapmap];0.82[MEX][hapmap];0.80[ASN][1000 genomes]
rs10867825	0.86[CHB][hapmap];0.93[JPT][hapmap];0.95[ASN][1000 genomes]
rs10867828	0.82[CEU][hapmap];0.84[CHB][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs10867830	0.84[CHB][hapmap];0.86[JPT][hapmap]
rs11139338	0.86[CEU][hapmap];0.84[CHB][hapmap];0.87[CHD][hapmap];0.93[JPT][hapmap];0.93[ASN][1000 genomes]
rs11139361	0.86[CEU][hapmap];0.87[CHD][hapmap];0.93[JPT][hapmap];0.92[ASN][1000 genomes]
rs11139511	0.82[CEU][hapmap];0.83[CHD][hapmap];0.86[JPT][hapmap];0.82[MEX][hapmap]
rs12115441	0.84[CHB][hapmap]
rs1411440	0.86[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1556211	0.84[CHB][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs1854702	0.91[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1854703	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1967880	0.84[CHB][hapmap];0.87[CHD][hapmap];0.93[JPT][hapmap];0.93[ASN][1000 genomes]
rs1970017	0.84[CHB][hapmap];0.91[CHD][hapmap];0.93[JPT][hapmap];0.93[ASN][1000 genomes]
rs2026150	0.84[CHB][hapmap];0.93[JPT][hapmap]
rs2161056	0.86[CHD][hapmap];0.85[JPT][hapmap];0.86[MEX][hapmap]
rs2309515	0.83[CHD][hapmap];0.93[JPT][hapmap]
rs4744913	0.84[CHB][hapmap];0.93[JPT][hapmap];0.93[ASN][1000 genomes]
rs4744914	0.92[ASN][1000 genomes]
rs4744917	0.91[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.88[AFR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4744918	0.95[ASN][1000 genomes]
rs4744919	0.90[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4744920	0.81[EUR][1000 genomes]
rs6559643	0.91[CEU][hapmap];0.92[CHB][hapmap];0.84[CHD][hapmap];0.85[GIH][hapmap];0.93[JPT][hapmap];0.82[MEX][hapmap];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7030393	0.86[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7031694	0.91[CEU][hapmap];0.84[CHB][hapmap];0.87[CHD][hapmap];0.93[GIH][hapmap];0.93[JPT][hapmap];0.82[MEX][hapmap];0.89[TSI][hapmap];0.88[EUR][1000 genomes]
rs72719029	0.91[ASN][1000 genomes]
rs7350265	0.92[ASN][1000 genomes]
rs7850006	0.84[ASN][1000 genomes]
rs7853783	0.84[CHB][hapmap];0.93[JPT][hapmap];0.93[ASN][1000 genomes]
rs7864173	0.82[ASN][1000 genomes]
rs7871895	0.81[CEU][hapmap];0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs986352	0.90[CEU][hapmap];0.83[CHB][hapmap];0.92[JPT][hapmap];0.88[EUR][1000 genomes]
rs987653	0.81[CEU][hapmap];0.92[CHB][hapmap];0.95[CHD][hapmap];0.80[GIH][hapmap];0.93[JPT][hapmap];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893437	chr9:72118962-72223176	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1330334	GDA	cis	parietal	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72180400-72208400	Weak transcription	Gastric	stomach
2	chr9:72187400-72204800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr9:72195800-72208200	Weak transcription	Fetal Lung	lung
4	chr9:72196000-72204800	Weak transcription	Fetal Brain Male	brain
5	chr9:72196200-72204800	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr9:72201000-72205000	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr9:72204200-72205200	Enhancers	Brain Germinal Matrix	brain
8	chr9:72204200-72207000	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr9:72204400-72205000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr9:72204400-72206000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
11	chr9:72204400-72207000	Enhancers	Brain Hippocampus Middle	brain

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