Variant report

Variant	rs28397882
Chromosome Location	chr4:104282836-104282837
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10009242	0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10212959	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1156669	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11734572	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1356293	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1400365	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1516740	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1607094	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1607095	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2138592	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28498687	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2866645	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28728298	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4481237	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6533082	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6533083	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6533088	0.92[ASN][1000 genomes]
rs6821137	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6822783	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6828151	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6828829	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6836157	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6855777	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7699661	0.84[ASN][1000 genomes]
rs951598	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs970156	0.82[ASN][1000 genomes]

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	nsv1015023	chr4:104039145-104565217	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	esv2757947	chr4:104179925-104342395	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	esv2759271	chr4:104179925-104342395	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv3348747	chr4:104214627-104609795	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv879686	chr4:104260725-104335667	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:104280800-104283800	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
2	chr4:104281800-104283200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr4:104282200-104293600	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr4:104282400-104284600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr4:104282800-104284200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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