Variant report

Variant	rs1937339
Chromosome Location	chr10:90815975-90815976
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10788633	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10887910	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10887911	0.87[ASN][1000 genomes]
rs10887912	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11202948	0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11202952	0.81[JPT][hapmap]
rs11202953	0.85[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11202958	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11202961	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11202964	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11202972	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11202979	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11202983	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11202989	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs12218492	0.91[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap]
rs2211596	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2211597	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2226246	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4934441	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4934443	0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4934444	0.86[ASN][1000 genomes]
rs4934449	0.82[CHB][hapmap];0.92[CHD][hapmap];0.88[GIH][hapmap];0.91[JPT][hapmap];0.93[MEX][hapmap]
rs7100691	0.95[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv831943	chr10:90664836-90865834	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv467416	chr10:90815975-90889997	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
5	nsv551842	chr10:90815975-90889997	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1937339	HTR7	cis	cerebellum	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90794200-90816800	Weak transcription	Left Ventricle	heart
2	chr10:90801400-90829400	Weak transcription	Aorta	Aorta
3	chr10:90803200-90825000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr10:90807800-90822200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr10:90807800-90825000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr10:90808000-90823800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr10:90811400-90822600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr10:90813600-90816800	Weak transcription	Ovary	ovary
9	chr10:90813600-90816800	Weak transcription	Right Atrium	heart
10	chr10:90815800-90817000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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