Variant report

Variant	rs13002028
Chromosome Location	chr2:37646632-37646633
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 4 )

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

rs_ID	r²[population]
rs10165491	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10181043	0.92[ASN][1000 genomes]
rs10189370	0.90[ASN][1000 genomes]
rs1024811	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12475384	0.97[ASN][1000 genomes]
rs12476654	0.88[ASN][1000 genomes]
rs12987182	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13003908	0.90[ASN][1000 genomes]
rs13014680	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13035644	0.92[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17020669	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2373002	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2373106	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2373107	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34105303	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34652606	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34658454	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4490163	0.91[ASN][1000 genomes]
rs4549068	0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4670705	0.90[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4670713	0.91[ASN][1000 genomes]
rs62133308	0.84[ASN][1000 genomes]
rs6544076	0.88[ASN][1000 genomes]
rs6732454	0.90[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6754566	0.85[EUR][1000 genomes]
rs71437580	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833814	chr2:37643132-37840247	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs13002028	ATL2	cis	cerebellum	SCAN
rs13002028	QPCT	cis	lymphoblastoid	seeQTL
rs13002028	FEZ2	cis	lymphoblastoid	seeQTL
rs13002028	GALM	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:37642200-37649000	Weak transcription	Fetal Lung	lung
2	chr2:37642400-37648800	Weak transcription	Fetal Kidney	kidney
3	chr2:37642600-37648800	Weak transcription	Fetal Stomach	stomach
4	chr2:37643000-37648800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr2:37643200-37651200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr2:37644200-37647000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr2:37645400-37648400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr2:37645800-37648200	Weak transcription	NHDF-Ad	bronchial
9	chr2:37646600-37648400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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