Variant report

Variant	rs1455427
Chromosome Location	chr5:97700050-97700051
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10515275	0.83[CHB][hapmap];0.84[CHD][hapmap];0.82[JPT][hapmap]
rs11745914	0.81[AMR][1000 genomes]
rs12513398	0.82[EUR][1000 genomes]
rs12652566	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13161187	0.85[CHB][hapmap];0.83[JPT][hapmap]
rs13185967	0.83[CHB][hapmap];0.84[CHD][hapmap];0.80[GIH][hapmap];0.82[JPT][hapmap]
rs13190416	0.82[ASN][1000 genomes]
rs13359215	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1350022	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1378439	0.91[CHB][hapmap];0.91[JPT][hapmap];0.83[ASN][1000 genomes]
rs1378440	0.91[CHB][hapmap];0.89[CHD][hapmap];0.83[GIH][hapmap];0.91[JPT][hapmap];0.83[ASN][1000 genomes]
rs1378441	0.83[ASN][1000 genomes]
rs1378444	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1455423	0.82[JPT][hapmap]
rs17165848	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17165849	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2198680	0.95[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2219186	0.90[ASN][1000 genomes]
rs2887280	0.91[CHB][hapmap];0.91[JPT][hapmap];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs35371994	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs35774032	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4538635	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4703069	0.81[JPT][hapmap]
rs56308227	0.84[ASN][1000 genomes]
rs60805392	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62366857	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6594728	0.83[ASN][1000 genomes]
rs6859633	0.87[CHB][hapmap];0.82[JPT][hapmap]
rs6876270	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6898721	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7713002	0.91[CHB][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs7727877	0.82[ASN][1000 genomes]
rs961713	0.83[CHB][hapmap];0.84[CHD][hapmap];0.82[JPT][hapmap]

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	nsv882407	chr5:97553255-97783046	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv882408	chr5:97616089-97836794	Enhancers Strong transcription ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv830419	chr5:97653713-97829079	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv4928	chr5:97689980-97734899	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1455427	ST8SIA4	cis	parietal	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:97696200-97700800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr5:97696200-97700800	Weak transcription	Gastric	stomach
3	chr5:97697600-97702000	Weak transcription	Pancreas	Pancrea
4	chr5:97697600-97705200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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