Variant report

Variant	rs12501838
Chromosome Location	chr4:54972890-54972891
allele	A/T
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:16)

rs_ID	r²[population]
rs1017280	0.82[AMR][1000 genomes]
rs12500475	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12507253	0.82[AMR][1000 genomes]
rs12512002	0.82[AMR][1000 genomes]
rs13114613	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13142462	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34372785	0.83[EUR][1000 genomes]
rs35511042	0.82[AMR][1000 genomes]
rs35529982	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35638196	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35818763	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41386153	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6554148	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6817230	0.82[EUR][1000 genomes]
rs71597863	0.82[AMR][1000 genomes]
rs7695934	0.83[EUR][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	nsv879018	chr4:54714753-55030375	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv1003167	chr4:54732051-55081905	Enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv537096	chr4:54732051-55081905	Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv594202	chr4:54943432-55011123	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv594203	chr4:54960005-55030375	Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:54968800-54973000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr4:54969200-54973400	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr4:54970600-54975200	Weak transcription	Pancreas	Pancrea
4	chr4:54970600-54975600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr4:54972200-54973200	Weak transcription	Brain Germinal Matrix	brain
6	chr4:54972200-54973200	Weak transcription	GM12878-XiMat	blood
7	chr4:54972200-54975200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr4:54972800-54975400	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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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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