Variant report

Variant	rs241957
Chromosome Location	chr19:38281363-38281364
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10422056	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs11083438	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11083439	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11665877	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11668384	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11668434	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11668558	0.87[EUR][1000 genomes]
rs12462485	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12610891	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12972712	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12981237	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12982288	0.87[EUR][1000 genomes]
rs17306508	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs241937	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs241940	0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs241941	0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs241942	0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs241943	0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs241944	0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs241946	0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs241947	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs241953	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs241959	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs241960	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2909106	0.81[EUR][1000 genomes]
rs3112435	0.87[EUR][1000 genomes]
rs34607899	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34782935	0.84[EUR][1000 genomes]
rs34949193	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs35015599	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35214625	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35415221	0.84[EUR][1000 genomes]
rs36020184	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs36092052	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3752365	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3894129	0.88[ASN][1000 genomes]
rs4482404	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4802134	0.96[ASN][1000 genomes]
rs4803536	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4803566	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs57308437	0.87[EUR][1000 genomes]
rs62108339	0.84[EUR][1000 genomes]
rs62108355	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6508748	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs697433	0.81[AMR][1000 genomes]
rs7250668	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7254828	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7255551	0.83[ASN][1000 genomes]
rs8102871	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs8103882	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs8105694	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs8110417	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs8111400	0.83[ASN][1000 genomes]
rs856302	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs856309	0.91[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv579468	chr19:37977609-38293487	ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv949296	chr19:38034722-38763140	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	nsv833820	chr19:38190721-38414049	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv960835	chr19:38270238-38293706	Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38270800-38281400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr19:38279600-38281400	ZNF genes & repeats	Fetal Stomach	stomach
3	chr19:38281000-38281600	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr19:38281000-38281600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
5	chr19:38281000-38281800	ZNF genes & repeats	Brain Hippocampus Middle	brain
6	chr19:38281000-38282000	ZNF genes & repeats	Skeletal Muscle Male	skeletal muscle
7	chr19:38281200-38282200	ZNF genes & repeats	Spleen	Spleen
8	chr19:38281200-38282400	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum

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