Variant report

Variant	rs10035650
Chromosome Location	chr5:93936485-93936486
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 9 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10037816	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10039801	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10041551	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs10043779	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10051931	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs10053484	1.00[CHB][hapmap]
rs10058618	1.00[CHB][hapmap]
rs10072760	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10076188	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs10078304	1.00[CHB][hapmap]
rs10476612	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs10476613	1.00[CHB][hapmap]
rs10476615	1.00[CHB][hapmap]
rs11949638	0.89[ASW][hapmap];0.95[LWK][hapmap];0.96[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs12514101	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs12517866	1.00[CHB][hapmap]
rs12518034	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs12522312	1.00[CHB][hapmap]
rs13358642	1.00[CHB][hapmap]
rs13361811	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs13362556	1.00[CHB][hapmap]
rs17083818	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2132547	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs306573	1.00[CHB][hapmap]
rs57415386	0.90[AFR][1000 genomes]
rs58561035	0.90[AFR][1000 genomes]
rs6873364	1.00[CHB][hapmap]
rs6898585	0.89[ASW][hapmap];0.95[LWK][hapmap];0.99[MKK][hapmap];1.00[YRI][hapmap]
rs755898	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs7725095	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs7737779	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023191	chr5:93351646-93947928	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv537808	chr5:93351646-93947928	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	esv2758002	chr5:93765205-94042201	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
4	esv2759354	chr5:93765205-94042201	Active TSS ZNF genes & repeats Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
5	nsv534495	chr5:93789736-93962131	Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
6	nsv598952	chr5:93823951-93956986	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:9)

SNP	Gene	Cis/trans	Tissue	Source
rs10035650	MCTP1	cis	uninvolved skin	skin_eQTL
rs10035650	ARRDC3	cis	cerebellum	SCAN
rs10035650	WTAP	trans	cerebellum	SCAN
rs10035650	MUC13	trans	lymphoblastoid	seeQTL
rs10035650	MCTP1	Cis_1M	lymphoblastoid	RTeQTL
rs10035650	ANKRD32	Cis_1M	lymphoblastoid	RTeQTL
rs10035650	MCTP1	cis	lymphoblastoid	seeQTL
rs10035650	ANKRD32	cis	multi-tissue	Pritchard
rs10035650	C5orf36	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:93925000-93937400	Weak transcription	Fetal Lung	lung
2	chr5:93930400-93936800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr5:93930600-93938000	Weak transcription	Fetal Kidney	kidney
4	chr5:93931400-93937000	Weak transcription	Fetal Brain Female	brain
5	chr5:93931400-93938200	Weak transcription	Ovary	ovary
6	chr5:93934600-93942400	Weak transcription	Fetal Stomach	stomach
7	chr5:93934600-93951200	Weak transcription	Brain Anterior Caudate	brain
8	chr5:93935000-93940000	Weak transcription	Gastric	stomach
9	chr5:93935200-93936600	Enhancers	Primary neutrophils fromperipheralblood	blood
10	chr5:93935600-93938000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr5:93935800-93938000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr5:93936000-93937600	Weak transcription	Primary T cells from cord blood	blood
13	chr5:93936200-93937200	ZNF genes & repeats	Aorta	Aorta
14	chr5:93936400-93938000	Weak transcription	Brain Hippocampus Middle	brain

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