Variant report

Variant	rs10895742
Chromosome Location	chr11:104751979-104751980
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 4 )

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

rs_ID	r²[population]
rs10895740	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10895744	0.84[CHB][hapmap]
rs11226520	0.80[EUR][1000 genomes]
rs11226540	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11226546	0.92[CHB][hapmap];0.86[JPT][hapmap]
rs11226547	0.83[ASW][hapmap];0.92[CHB][hapmap];0.85[CHD][hapmap];0.90[GIH][hapmap];0.86[JPT][hapmap];0.82[LWK][hapmap];0.87[TSI][hapmap]
rs11226550	0.92[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.87[MEX][hapmap];0.80[TSI][hapmap]
rs11605849	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs11825902	0.92[CHB][hapmap]
rs12418917	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12421345	0.96[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12422201	0.92[CHB][hapmap];0.86[JPT][hapmap]
rs17103153	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2005513	0.92[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.83[MEX][hapmap];0.80[TSI][hapmap]
rs478650	0.87[CEU][hapmap];0.92[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.87[MEX][hapmap];0.87[TSI][hapmap];0.82[EUR][1000 genomes]
rs491011	0.92[CHB][hapmap];0.86[JPT][hapmap]
rs491945	0.92[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.87[MEX][hapmap];0.80[TSI][hapmap]
rs528641	0.92[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.82[MEX][hapmap];0.80[TSI][hapmap]
rs532705	0.92[CHB][hapmap];0.86[JPT][hapmap]
rs548968	0.88[EUR][1000 genomes]
rs549691	0.84[CHB][hapmap];0.86[JPT][hapmap]
rs561999	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs573894	0.92[CHB][hapmap];0.85[CHD][hapmap];0.90[GIH][hapmap];0.86[JPT][hapmap];0.82[MEX][hapmap]
rs579156	0.81[CHB][hapmap]
rs595395	0.92[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.93[JPT][hapmap];0.82[MEX][hapmap];0.80[TSI][hapmap]
rs61892077	0.80[EUR][1000 genomes]
rs626771	0.84[CHB][hapmap];0.86[JPT][hapmap]
rs641046	0.92[CHB][hapmap];0.85[JPT][hapmap]
rs656251	0.92[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.87[MEX][hapmap];0.80[TSI][hapmap]
rs693312	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7106409	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046098	chr11:104207210-105003661	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv1054456	chr11:104358924-104805251	Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv531430	chr11:104380924-105194452	Genic enhancers Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv826072	chr11:104662708-104768357	Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv832255	chr11:104674918-104846961	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
6	esv2757474	chr11:104719593-104798545	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	esv2759862	chr11:104719593-104798545	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv8869	chr11:104724605-104760037	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	esv3465886	chr11:104724810-104759731	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	esv3465897	chr11:104724823-104759731	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	esv3465908	chr11:104724823-104759731	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	esv3693098	chr11:104728524-104759546	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv898355	chr11:104730322-104897843	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10895742	CASP5	cis	multi-tissue	Pritchard
rs10895742	CASP1	cis	multi-tissue	Pritchard
rs10895742	PDGFD	cis	parietal	SCAN
rs10895742	CASP12	cis	cerebellum	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:104744200-104761000	Weak transcription	Aorta	Aorta
2	chr11:104745600-104768600	Weak transcription	Left Ventricle	heart
3	chr11:104749000-104753400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr11:104749000-104753400	Weak transcription	Dnd41	blood
5	chr11:104749000-104756600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr11:104749000-104756600	Weak transcription	Ovary	ovary
7	chr11:104750600-104752400	Enhancers	Primary B cells from peripheral blood	blood
8	chr11:104751000-104752800	Enhancers	Primary B cells from cord blood	blood
9	chr11:104751800-104752400	Flanking Active TSS	GM12878-XiMat	blood

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