Variant report

Variant	rs11239177
Chromosome Location	chr10:45123379-45123380
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:45122681..45123624-chr10:45136685..45137479,2	MCF-7	breast:

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1002589	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1021055	0.80[EUR][1000 genomes]
rs10450452	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10900074	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10900075	0.80[EUR][1000 genomes]
rs10900076	0.80[EUR][1000 genomes]
rs11239137	0.80[EUR][1000 genomes]
rs11239154	0.80[EUR][1000 genomes]
rs11239156	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11239157	0.80[EUR][1000 genomes]
rs11239159	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12243864	0.80[EUR][1000 genomes]
rs12244967	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12254041	0.80[EUR][1000 genomes]
rs12775039	0.80[EUR][1000 genomes]
rs1585913	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1904836	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1904837	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1962989	0.85[EUR][1000 genomes]
rs1962991	0.80[EUR][1000 genomes]
rs1999774	0.80[EUR][1000 genomes]
rs1999775	0.80[EUR][1000 genomes]
rs2061970	0.80[AMR][1000 genomes]
rs2061971	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4350324	0.80[AMR][1000 genomes]
rs7082189	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7083920	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7097516	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7100914	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs749000	0.80[EUR][1000 genomes]
rs899889	0.80[EUR][1000 genomes]
rs899890	0.80[EUR][1000 genomes]
rs9783143	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs999640	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	esv2422287	chr10:45044161-45257684	Active TSS Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv831843	chr10:45084703-45280032	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

Variant related diseases (count:1)

Disease	PMID	Source
Bipolar disorder and schizophrenia	20889312	GWAS catalog

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:45115200-45126800	Weak transcription	Aorta	Aorta
2	chr10:45120400-45124200	Weak transcription	HSMMtube	muscle
3	chr10:45120800-45123600	Weak transcription	HSMM	muscle
4	chr10:45121600-45124000	Weak transcription	Monocytes-CD14+_RO01746	blood
5	chr10:45121800-45124200	Weak transcription	Primary monocytes fromperipheralblood	blood
6	chr10:45122800-45124400	Weak transcription	Brain Hippocampus Middle	brain
7	chr10:45122800-45125800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr10:45122800-45125800	Enhancers	NHDF-Ad	bronchial
9	chr10:45123000-45123600	Enhancers	Muscle Satellite Cultured Cells	--
10	chr10:45123000-45123800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr10:45123000-45123800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr10:45123000-45124000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr10:45123000-45125200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr10:45123000-45125200	Enhancers	Osteobl	bone
15	chr10:45123200-45124400	Enhancers	HMEC	breast

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