Variant report

Variant	rs6828513
Chromosome Location	chr4:55878925-55878926
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11133352	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11133353	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11728782	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12499627	0.81[EUR][1000 genomes]
rs12506379	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12510427	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12641950	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12641995	0.87[AMR][1000 genomes]
rs34239528	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs73234279	0.94[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs73234280	0.94[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs73234283	0.81[EUR][1000 genomes]
rs73234284	0.94[AMR][1000 genomes]
rs73234287	0.94[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs73234290	0.83[AMR][1000 genomes]
rs73234291	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73234292	0.96[AMR][1000 genomes];0.90[EUR][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	nsv526344	chr4:55522488-56231119	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv948758	chr4:55748430-55887962	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv829939	chr4:55856771-56005011	Enhancers Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv432603	chr4:55877236-55970782	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:55872800-55883000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr4:55873000-55883000	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr4:55874800-55879000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr4:55875400-55879000	Weak transcription	Right Atrium	heart
5	chr4:55876800-55879800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr4:55877400-55879200	Enhancers	Fetal Lung	lung
7	chr4:55878400-55879000	Enhancers	HUVEC	blood vessel
8	chr4:55878400-55879200	Enhancers	Fetal Intestine Large	intestine
9	chr4:55878800-55879000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr4:55878800-55879200	Enhancers	Gastric	stomach
11	chr4:55878800-55879800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr4:55878800-55880400	Enhancers	HMEC	breast

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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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