Variant report

Variant	rs6828460
Chromosome Location	chr4:53956687-53956688
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs28817423	0.92[AFR][1000 genomes]
rs57470249	0.85[AFR][1000 genomes]
rs59033313	0.92[AFR][1000 genomes]
rs6815750	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs6829771	0.85[YRI][hapmap];0.82[AFR][1000 genomes]
rs6855857	0.92[AFR][1000 genomes]
rs7664855	0.92[AFR][1000 genomes]
rs7674948	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs7683505	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs7694536	1.00[YRI][hapmap];1.00[AFR][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	nsv1004889	chr4:53436500-54106281	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv537094	chr4:53436500-54106281	Bivalent/Poised TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:53933400-53959200	Weak transcription	Gastric	stomach
2	chr4:53934200-53964600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr4:53953400-53965600	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr4:53954200-53957000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr4:53955200-53957000	Weak transcription	Psoas Muscle	Psoas
6	chr4:53955800-53956800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr4:53955800-53957000	Enhancers	NHDF-Ad	bronchial
8	chr4:53955800-53957000	Enhancers	Osteobl	bone
9	chr4:53955800-53957400	Enhancers	Fetal Heart	heart
10	chr4:53956000-53956800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr4:53956000-53957200	Enhancers	HSMMtube	muscle
12	chr4:53956400-53957200	Enhancers	Skeletal Muscle Male	skeletal muscle
13	chr4:53956400-53964800	Weak transcription	NHLF	lung
14	chr4:53956600-53957200	Enhancers	Skeletal Muscle Female	skeletal muscle

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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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