Variant report

Variant	rs1821750
Chromosome Location	chr3:87045921-87045922
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:87039512..87041163-chr3:87044604..87047254,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000206538	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs12152340	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1370040	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1370042	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1436647	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1898274	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2118078	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2262594	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2262595	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2575775	0.80[EUR][1000 genomes]
rs2575780	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2575782	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2575783	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2575784	0.85[EUR][1000 genomes]
rs2575794	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2575799	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2575800	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2660767	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2660769	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2660772	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2660773	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2660774	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2660779	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2660796	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2660797	0.83[EUR][1000 genomes]
rs2660798	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs990159	0.91[AMR][1000 genomes];0.98[EUR][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	nsv534036	chr3:86967129-87283600	Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv1000548	chr3:87034157-87331360	Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:87041400-87046400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr3:87043200-87046400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr3:87043400-87046000	Weak transcription	HUVEC	blood vessel
4	chr3:87043400-87046400	Enhancers	Hela-S3	cervix
5	chr3:87043400-87046600	Enhancers	Muscle Satellite Cultured Cells	--
6	chr3:87043400-87046600	Enhancers	Osteobl	bone
7	chr3:87044200-87046000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr3:87044200-87046200	Enhancers	HSMMtube	muscle
9	chr3:87044800-87046400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr3:87044800-87046400	Enhancers	NHDF-Ad	bronchial
11	chr3:87045000-87046400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr3:87045000-87046600	Enhancers	HSMM	muscle
13	chr3:87045000-87046600	Enhancers	NHLF	lung
14	chr3:87045200-87046600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr3:87045200-87046600	Enhancers	Placenta	Placenta
16	chr3:87045200-87046800	Enhancers	Placenta Amnion	Placenta Amnion
17	chr3:87045400-87046000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr3:87045400-87046400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr3:87045600-87046200	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr3:87045600-87046200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
21	chr3:87045600-87046200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr3:87045600-87046600	Enhancers	NH-A	brain
23	chr3:87045800-87046200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr3:87045800-87046200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr3:87045800-87046800	Enhancers	A549	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links