Variant report

Variant	rs10404254
Chromosome Location	chr19:40078461-40078462
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10401220	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10406418	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10409199	0.88[AFR][1000 genomes]
rs10411410	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10417116	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10417553	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10418704	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10419137	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10421338	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10421845	1.00[YRI][hapmap]
rs10425352	0.93[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13347073	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61607345	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61705840	1.00[AMR][1000 genomes]
rs7260050	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8110529	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8113631	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1060251	chr19:39982988-40099773	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
2	nsv579509	chr19:40004640-40133438	Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
3	esv34120	chr19:40044635-40131820	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:40078000-40079400	Enhancers	HMEC	breast
2	chr19:40078200-40079200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr19:40078200-40079200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr19:40078200-40079200	Weak transcription	Placenta	Placenta

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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