Variant report

Variant	rs10455346
Chromosome Location	chr6:79138641-79138642
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10455345	0.92[AMR][1000 genomes]
rs10943539	0.95[ASN][1000 genomes]
rs12190721	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12192598	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12193017	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12194127	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12194220	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12209135	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12213776	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1452535	0.92[AMR][1000 genomes]
rs2092532	0.95[ASN][1000 genomes]
rs2092535	1.00[ASN][1000 genomes]
rs2103720	0.95[ASN][1000 genomes]
rs2206833	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62426486	0.84[EUR][1000 genomes]
rs62426487	0.84[EUR][1000 genomes]
rs72894264	0.92[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9443570	0.95[ASN][1000 genomes]
rs9443572	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9448389	0.92[AMR][1000 genomes]
rs9448428	0.95[ASN][1000 genomes]
rs9448430	0.95[ASN][1000 genomes]
rs9448432	0.95[ASN][1000 genomes]
rs9448433	0.95[ASN][1000 genomes]
rs9448434	0.95[ASN][1000 genomes]
rs9448436	0.95[ASN][1000 genomes]
rs9448439	0.95[ASN][1000 genomes]
rs9448442	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758064	chr6:78795880-79193468	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
2	esv2759447	chr6:78795880-79193468	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv886235	chr6:78861808-79369972	Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1018006	chr6:79003806-79228498	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv604011	chr6:79042990-79455282	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv886298	chr6:79115925-79163463	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv886299	chr6:79129963-79174637	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv886300	chr6:79129963-79341891	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10455346	HMGN3	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:79138600-79138800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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