Variant report

Variant	rs28876828
Chromosome Location	chr4:54118850-54118851
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11724781	0.90[EUR][1000 genomes]
rs13146499	0.85[ASN][1000 genomes]
rs17654608	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2412401	0.92[ASN][1000 genomes]
rs28640919	0.92[ASN][1000 genomes]
rs34690074	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4557334	0.86[ASN][1000 genomes]
rs4864737	0.84[ASN][1000 genomes]
rs4864742	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6554075	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6813560	0.81[EUR][1000 genomes]
rs6820250	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6827392	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6857744	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs751266	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9759746	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv997614	chr4:54086727-54150632	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv879013	chr4:54093717-54137228	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:54101600-54129400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr4:54106600-54120000	Weak transcription	Gastric	stomach
3	chr4:54108400-54129600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr4:54114400-54134400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr4:54114400-54139600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr4:54114400-54144000	Weak transcription	Liver	Liver
7	chr4:54114600-54121000	Weak transcription	Pancreas	Pancrea
8	chr4:54114600-54126400	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr4:54114600-54129800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr4:54114800-54129400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr4:54114800-54130000	Weak transcription	Duodenum Mucosa	Duodenum
12	chr4:54116400-54120400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr4:54117800-54132800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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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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