Variant report

Variant	rs12413355
Chromosome Location	chr10:117973597-117973598
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10736246	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11197581	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[GIH][hapmap];0.87[JPT][hapmap];0.83[MEX][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11197583	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12269391	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[GIH][hapmap];0.87[JPT][hapmap];0.97[TSI][hapmap];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2463160	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2577378	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2577380	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2577381	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[GIH][hapmap];0.87[JPT][hapmap];0.93[MEX][hapmap];0.93[TSI][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2577383	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2694762	0.95[CEU][hapmap];0.92[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3781550	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[GIH][hapmap];0.87[JPT][hapmap];0.85[MEX][hapmap];0.97[TSI][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4628599	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4636574	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs59065548	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60408987	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7094346	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73372455	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73372456	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7920934	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7923755	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[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	esv3449389	chr10:117806874-118102404	Active TSS Enhancers Bivalent Enhancer Strong transcription Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv832000	chr10:117944492-118116253	Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

Variant related diseases (count:1)

Disease	PMID	Source
Migraine with aura	23793025	GWAS catalog

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:117970800-117974800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr10:117970800-117975000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr10:117970800-117975400	Weak transcription	Fetal Intestine Small	intestine
4	chr10:117971000-117975000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr10:117971000-117975200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr10:117971400-117975200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr10:117972000-117975200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr10:117973000-117973600	Enhancers	HSMMtube	muscle
9	chr10:117973200-117974000	Enhancers	Fetal Muscle Leg	muscle
10	chr10:117973200-117975600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr10:117973400-117973600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr10:117973400-117975400	Weak transcription	Liver	Liver
13	chr10:117973400-117975800	Weak transcription	HSMM	muscle
14	chr10:117973400-117986400	Weak transcription	Fetal Stomach	stomach

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