Variant report

Variant	rs2226435
Chromosome Location	chr21:17980227-17980228
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr21:17922083..17924811-chr21:17979948..17982331,2	MCF-7	breast:
2	chr21:17826405..17827228-chr21:17980180..17981407,4	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-USP25-2	chr21:17979314-17982094	ENSG00000215386
2	lnc-USP25-2	chr21:17979314-17982094	NONHSAT081228

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10084567	1.00[EUR][1000 genomes]
rs10084608	1.00[EUR][1000 genomes]
rs10084612	0.81[YRI][hapmap];1.00[EUR][1000 genomes]
rs12482215	1.00[EUR][1000 genomes]
rs12482914	1.00[EUR][1000 genomes]
rs12483358	1.00[EUR][1000 genomes]
rs12483622	1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2040142	1.00[EUR][1000 genomes]
rs2212562	1.00[EUR][1000 genomes]
rs2823821	1.00[EUR][1000 genomes]
rs2823822	1.00[EUR][1000 genomes]
rs2823825	1.00[EUR][1000 genomes]
rs2823826	1.00[EUR][1000 genomes]
rs2823827	1.00[EUR][1000 genomes]
rs2823828	1.00[EUR][1000 genomes]
rs2823830	1.00[EUR][1000 genomes]
rs2823831	1.00[EUR][1000 genomes]
rs2823834	1.00[EUR][1000 genomes]
rs2823835	1.00[EUR][1000 genomes]
rs2823853	1.00[EUR][1000 genomes]
rs2823854	1.00[EUR][1000 genomes]
rs2823855	1.00[EUR][1000 genomes]
rs2823860	1.00[EUR][1000 genomes]
rs2823866	1.00[EUR][1000 genomes]
rs28496427	1.00[EUR][1000 genomes]
rs28875621	1.00[EUR][1000 genomes]
rs2896759	1.00[EUR][1000 genomes]
rs2896760	1.00[EUR][1000 genomes]
rs57523013	1.00[EUR][1000 genomes]
rs58072187	1.00[EUR][1000 genomes]
rs58175294	1.00[EUR][1000 genomes]
rs58304651	1.00[EUR][1000 genomes]
rs58640456	1.00[EUR][1000 genomes]
rs60754236	1.00[EUR][1000 genomes]
rs7277815	1.00[EUR][1000 genomes]
rs7278273	1.00[EUR][1000 genomes]
rs7280438	1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7283241	1.00[EUR][1000 genomes]
rs7283307	1.00[EUR][1000 genomes]
rs7283311	1.00[EUR][1000 genomes]
rs73363406	1.00[EUR][1000 genomes]
rs73363409	1.00[EUR][1000 genomes]
rs73363411	1.00[EUR][1000 genomes]
rs73366681	1.00[EUR][1000 genomes]
rs73366695	1.00[EUR][1000 genomes]
rs73368504	1.00[EUR][1000 genomes]
rs73368506	1.00[EUR][1000 genomes]
rs73368523	1.00[EUR][1000 genomes]
rs73380344	1.00[EUR][1000 genomes]
rs8128684	1.00[EUR][1000 genomes]
rs8132608	1.00[EUR][1000 genomes]
rs8132951	1.00[EUR][1000 genomes]
rs8133408	1.00[EUR][1000 genomes]
rs8134501	1.00[EUR][1000 genomes]
rs9305773	1.00[EUR][1000 genomes]
rs9976320	1.00[EUR][1000 genomes]
rs9976683	1.00[EUR][1000 genomes]
rs9977870	1.00[EUR][1000 genomes]
rs9981475	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1064857	chr21:17628760-18533131	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	345 gene(s)	inside rSNPs	diseases
2	nsv544382	chr21:17628760-18533131	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	345 gene(s)	inside rSNPs	diseases
3	nsv834052	chr21:17967385-18142224	Strong transcription Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:17961200-17985200	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr21:17961200-18003800	Weak transcription	Aorta	Aorta
3	chr21:17961400-17983200	Weak transcription	HSMMtube	muscle
4	chr21:17961400-17984000	Weak transcription	Osteobl	bone
5	chr21:17962200-17987800	Weak transcription	Hela-S3	cervix
6	chr21:17963600-17981400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr21:17969000-18005200	Weak transcription	Liver	Liver
8	chr21:17974000-18008800	Weak transcription	HUVEC	blood vessel
9	chr21:17976000-18001400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr21:17977800-17989800	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr21:17977800-17993600	Weak transcription	Primary hematopoietic stem cells	blood
12	chr21:17978200-17985800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr21:17978200-17988600	Weak transcription	Fetal Stomach	stomach
14	chr21:17978400-18006200	Weak transcription	Left Ventricle	heart
15	chr21:17978800-17980800	Weak transcription	Ovary	ovary
16	chr21:17978800-17981600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr21:17979000-17981400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr21:17979000-17996600	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr21:17979200-17980400	Strong transcription	Fetal Muscle Trunk	muscle
20	chr21:17979400-18006600	Weak transcription	Brain Hippocampus Middle	brain
21	chr21:17979600-17981400	Strong transcription	Adipose Nuclei	Adipose
22	chr21:17979600-17982200	Strong transcription	Fetal Muscle Leg	muscle
23	chr21:17979800-17981400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
24	chr21:17979800-17982400	Strong transcription	Cortex derived primary cultured neurospheres	brain
25	chr21:17979800-17986200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr21:17980000-17981200	Enhancers	Fetal Brain Female	brain
27	chr21:17980200-17981000	Enhancers	Fetal Brain Male	brain
28	chr21:17980200-17982000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links