Variant report

Variant	rs11234795
Chromosome Location	chr11:86471527-86471528
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:86451377..86454000-chr11:86469217..86471649,2	MCF-7	breast:
2	chr11:86457732..86459535-chr11:86470055..86471597,2	MCF-7	breast:

Extended variants
information (count: 99 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs10751141	0.82[CHB][hapmap]
rs1075702	0.91[CHB][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs10792875	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10898534	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11234783	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11234809	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11234834	0.81[CHB][hapmap]
rs11601553	0.86[ASW][hapmap];0.91[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs11602695	0.84[JPT][hapmap]
rs12361769	0.86[ASN][1000 genomes]
rs12366016	0.86[ASN][1000 genomes]
rs12576018	0.88[ASN][1000 genomes]
rs12797648	0.81[ASN][1000 genomes]
rs12802848	0.88[CEU][hapmap];0.95[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.85[TSI][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12809023	0.81[ASN][1000 genomes]
rs17211926	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs17819068	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs17819134	0.89[JPT][hapmap]
rs17819181	0.82[CHB][hapmap]
rs1939110	0.86[JPT][hapmap]
rs1939112	0.82[CHB][hapmap]
rs1939116	0.81[JPT][hapmap]
rs1939117	0.82[ASN][1000 genomes]
rs1954769	0.86[JPT][hapmap]
rs2155081	0.82[CHB][hapmap]
rs2433406	0.81[CHB][hapmap]
rs2433408	0.82[CHB][hapmap]
rs2433409	0.86[CHB][hapmap]
rs2433427	0.86[CHB][hapmap]
rs2433429	0.86[CHB][hapmap]
rs2433431	0.82[CHB][hapmap]
rs2433432	0.82[CHB][hapmap]
rs2433433	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs2433434	0.86[CHB][hapmap];0.82[CHD][hapmap];0.86[JPT][hapmap]
rs2433435	0.91[CHB][hapmap];0.85[CHD][hapmap];0.86[JPT][hapmap]
rs2433436	0.86[CHB][hapmap];0.84[CHD][hapmap];0.86[JPT][hapmap]
rs2433438	0.86[CHB][hapmap];0.82[CHD][hapmap];0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs2433439	0.86[CHB][hapmap];0.84[CHD][hapmap];0.86[JPT][hapmap]
rs2512996	0.86[CHB][hapmap]
rs2512997	0.86[CHB][hapmap]
rs2513003	0.82[CHB][hapmap]
rs2513005	0.82[CHB][hapmap]
rs2513018	0.90[CHB][hapmap];0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs3096715	0.91[CHB][hapmap];0.86[JPT][hapmap]
rs3096716	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs34833002	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35902217	0.82[ASN][1000 genomes]
rs36061072	0.82[ASN][1000 genomes]
rs3809048	0.86[JPT][hapmap]
rs4128368	0.91[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs4245426	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4245427	0.91[ASN][1000 genomes]
rs4269941	0.91[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4307743	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4450192	0.94[ASN][1000 genomes]
rs4485132	0.81[CHB][hapmap]
rs4495915	0.82[ASN][1000 genomes]
rs4570601	0.95[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.84[ASN][1000 genomes]
rs4943957	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4943958	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4943959	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4943960	0.90[ASN][1000 genomes]
rs4944629	0.85[AMR][1000 genomes]
rs4944630	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4944631	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4944632	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4944633	0.92[ASN][1000 genomes]
rs4944634	0.90[ASN][1000 genomes]
rs55646317	0.81[ASN][1000 genomes]
rs58823830	0.88[ASN][1000 genomes]
rs58976693	0.81[ASN][1000 genomes]
rs59850783	0.90[ASN][1000 genomes]
rs60023003	0.91[ASN][1000 genomes]
rs61690902	0.94[ASN][1000 genomes]
rs61707378	0.81[ASN][1000 genomes]
rs6592315	0.93[ASW][hapmap];0.86[CHB][hapmap];0.84[CHD][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs6592317	0.82[CHB][hapmap]
rs7105467	0.84[ASN][1000 genomes]
rs7120185	0.84[ASN][1000 genomes]
rs7123349	0.82[ASN][1000 genomes]
rs7126492	0.91[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs744292	0.81[ASN][1000 genomes]
rs7926235	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7926713	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7926946	0.82[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs7927257	0.82[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs7927479	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7942344	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7948063	0.93[ASW][hapmap];0.85[CEU][hapmap];0.95[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.82[YRI][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7950776	0.82[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs7951582	1.00[ASW][hapmap];0.85[CEU][hapmap];0.95[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.86[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044081	chr11:86133641-86868560	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv541118	chr11:86133641-86868560	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv428263	chr11:86357990-86508480	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv1049157	chr11:86409059-86504155	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv521505	chr11:86438115-86515072	Weak transcription Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv468775	chr11:86453415-86480716	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
7	nsv555705	chr11:86453415-86480716	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
8	esv2756074	chr11:86456552-86729552	Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11234795	CCDC89	cis	parietal	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86454000-86474000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr11:86456600-86478000	Weak transcription	Aorta	Aorta
3	chr11:86461400-86479600	Weak transcription	Psoas Muscle	Psoas
4	chr11:86461600-86471600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr11:86464800-86471600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr11:86464800-86472600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr11:86469800-86472800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr11:86470000-86473000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr11:86470600-86473000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr11:86471400-86472800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr11:86471400-86473400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr11:86471400-86473800	Enhancers	Osteobl	bone

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