Variant report

Variant	rs10028579
Chromosome Location	chr4:28450862-28450863
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs1588466	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1961016	0.82[CHD][hapmap]
rs2175326	0.91[ASN][1000 genomes]
rs2666114	0.81[CHB][hapmap]
rs56339662	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7678404	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9992937	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][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	nsv878775	chr4:28163856-28473048	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1010133	chr4:28273244-28642942	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1014938	chr4:28277683-28642942	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:28446000-28451400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr4:28446000-28462400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr4:28446200-28464600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr4:28449200-28451600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr4:28450600-28451000	Enhancers	Muscle Satellite Cultured Cells	--
6	chr4:28450800-28451200	Active TSS	Adipose Nuclei	Adipose
7	chr4:28450800-28451200	Active TSS	Brain Angular Gyrus	brain
8	chr4:28450800-28451200	Active TSS	A549	lung
9	chr4:28450800-28451200	Active TSS	HSMMtube	muscle
10	chr4:28450800-28451400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr4:28450800-28451400	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr4:28450800-28451400	Active TSS	Brain Cingulate Gyrus	brain
13	chr4:28450800-28451400	Active TSS	Brain Hippocampus Middle	brain
14	chr4:28450800-28451400	Active TSS	Ovary	ovary
15	chr4:28450800-28451400	Active TSS	Rectal Mucosa Donor 29	rectum
16	chr4:28450800-28451400	Active TSS	Rectal Mucosa Donor 31	rectum

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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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