Variant report

Variant	rs9608845
Chromosome Location	chr22:30481858-30481859
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 9 )

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs11913168	0.83[CHB][hapmap]
rs12373962	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12484336	0.89[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs16987156	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16988084	0.85[AMR][1000 genomes]
rs16988135	0.92[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs16988383	0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap]
rs28428766	0.89[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs28522206	0.89[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs28595572	0.83[AMR][1000 genomes]
rs3788421	0.89[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs57462999	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61352751	0.85[AMR][1000 genomes]
rs7284538	0.92[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.85[TSI][hapmap];0.86[YRI][hapmap];0.89[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7285751	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7286551	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7286905	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7290085	0.89[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7292732	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73161099	0.85[AMR][1000 genomes]
rs73162731	0.85[AMR][1000 genomes]
rs73162773	0.89[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs73164739	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73883345	0.87[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs8138677	0.85[AMR][1000 genomes]
rs8139217	0.82[ASW][hapmap];0.92[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.90[AMR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8140770	0.85[AMR][1000 genomes]
rs9306466	0.89[AMR][1000 genomes]
rs9608822	0.85[AMR][1000 genomes]
rs9608823	0.85[AMR][1000 genomes]
rs9608836	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9608843	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9608847	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9614087	0.85[AMR][1000 genomes]
rs9614089	0.85[AMR][1000 genomes]
rs9614097	0.85[AMR][1000 genomes]
rs9614101	0.81[AMR][1000 genomes]
rs9614105	0.85[AMR][1000 genomes]
rs9614108	0.85[AMR][1000 genomes]
rs9614110	0.83[AMR][1000 genomes]
rs9614111	0.83[AMR][1000 genomes]
rs9614122	0.92[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.85[TSI][hapmap];0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9614124	0.90[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9614127	0.90[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9614128	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs9614129	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9614131	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9614132	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9614143	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9614144	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9614145	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9614152	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9614153	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9614155	0.85[EUR][1000 genomes]
rs9680595	0.89[AMR][1000 genomes]
rs9680809	0.89[AMR][1000 genomes]
rs9983	0.91[ASW][hapmap];0.92[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1064081	chr22:29826745-30623965	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv544677	chr22:29826745-30623965	Weak transcription Bivalent/Poised TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases

mRNA abundance (count:9)

SNP	Gene	Cis/trans	Tissue	Source
rs9608845	MTMR3	Cis_1M	lymphoblastoid	RTeQTL
rs9608845	MTMR3	cis	Nerve Tibial	GTEx
rs9608845	MTMR3	cis	parietal	SCAN
rs9608845	MTMR3	cis	Artery Tibial	GTEx
rs9608845	MTMR3	cis	Adipose Subcutaneous	GTEx
rs9608845	MTMR3	cis	lung	GTEx
rs9608845	MTMR3	cis	Thyroid	GTEx
rs9608845	INPP5J	cis	cerebellum	SCAN
rs9608845	CRYBB2P1	cis	cerebellum	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:30475800-30485400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr22:30481200-30483200	Enhancers	Dnd41	blood
3	chr22:30481800-30482800	Enhancers	Primary T cells from cord blood	blood

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