Variant report

Variant	rs2043380
Chromosome Location	chr15:87612368-87612369
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1010419	0.82[CHB][hapmap];0.95[JPT][hapmap]
rs11073689	0.95[ASN][1000 genomes]
rs1368624	0.97[ASN][1000 genomes]
rs1433453	0.98[ASN][1000 genomes]
rs1836083	0.90[ASN][1000 genomes]
rs1897661	0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs2570123	0.93[ASN][1000 genomes]
rs2570128	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2570130	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2594328	0.82[CHB][hapmap];0.95[JPT][hapmap]
rs2594329	0.80[ASN][1000 genomes]
rs2594330	0.86[ASN][1000 genomes]
rs2701394	0.92[ASN][1000 genomes]
rs2701397	0.94[ASN][1000 genomes]
rs2701405	0.85[ASN][1000 genomes]
rs2701406	0.86[ASN][1000 genomes]
rs2701407	0.86[ASN][1000 genomes]
rs2701408	0.82[ASN][1000 genomes]
rs2701415	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7177132	0.94[ASN][1000 genomes]
rs7182264	0.94[ASN][1000 genomes]
rs9921009	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1039254	chr15:87070357-87942988	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv533986	chr15:87100872-87633926	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1039005	chr15:87228489-87813438	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv542465	chr15:87228489-87813438	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv1044157	chr15:87458558-88101699	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv428646	chr15:87612249-87759363	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2043380	SCAND2	cis	parietal	SCAN
rs2043380	UBE2Q2P1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:87609800-87633000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links