Variant report

Variant	rs28404254
Chromosome Location	chr4:86453723-86453724
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10003508	1.00[AMR][1000 genomes]
rs10003616	1.00[AMR][1000 genomes]
rs10006491	1.00[AMR][1000 genomes]
rs10009042	1.00[AMR][1000 genomes]
rs10009686	1.00[AMR][1000 genomes]
rs10015628	1.00[AMR][1000 genomes]
rs10016029	1.00[AMR][1000 genomes]
rs10016153	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10020940	1.00[AMR][1000 genomes]
rs10023579	1.00[AMR][1000 genomes]
rs10030914	1.00[AMR][1000 genomes]
rs10031920	1.00[AMR][1000 genomes]
rs10033604	1.00[AMR][1000 genomes]
rs13434500	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13435619	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28380594	1.00[AMR][1000 genomes]
rs28385277	1.00[AMR][1000 genomes]
rs28385531	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28416247	1.00[AMR][1000 genomes]
rs28417307	1.00[AMR][1000 genomes]
rs28446374	1.00[AMR][1000 genomes]
rs28463959	1.00[AMR][1000 genomes]
rs28483739	1.00[AMR][1000 genomes]
rs28493605	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28542843	1.00[AMR][1000 genomes]
rs28556771	1.00[AMR][1000 genomes]
rs28568576	1.00[AMR][1000 genomes]
rs28585433	1.00[AMR][1000 genomes]
rs28607329	1.00[AMR][1000 genomes]
rs28618270	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28645081	1.00[AMR][1000 genomes]
rs28652904	1.00[AMR][1000 genomes]
rs28663637	1.00[AMR][1000 genomes]
rs28671522	1.00[AMR][1000 genomes]
rs28708671	1.00[AMR][1000 genomes]
rs28733613	1.00[AMR][1000 genomes]
rs9996146	1.00[AFR][1000 genomes];1.00[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	nsv519588	chr4:85762385-86591202	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv461566	chr4:85988032-86725502	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	nsv594747	chr4:85988032-86725502	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
4	nsv470048	chr4:85998783-86720838	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:86430200-86468600	Weak transcription	Pancreas	Pancrea
2	chr4:86436400-86455600	Weak transcription	Gastric	stomach
3	chr4:86445400-86464600	Weak transcription	HSMM	muscle
4	chr4:86452200-86454400	Enhancers	Primary B cells from peripheral blood	blood
5	chr4:86452200-86465000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr4:86452600-86454800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr4:86453000-86454200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr4:86453200-86453800	Weak transcription	NHDF-Ad	bronchial
9	chr4:86453400-86455200	Weak transcription	Primary monocytes fromperipheralblood	blood
10	chr4:86453400-86458600	Weak transcription	Fetal Heart	heart
11	chr4:86453600-86454000	Enhancers	Primary B cells from cord blood	blood

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Input of quick search could be:

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

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