Variant report

Variant	rs28655404
Chromosome Location	chr3:118644613-118644614
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1158699	0.81[AFR][1000 genomes]
rs12492855	0.82[AFR][1000 genomes]
rs16829179	0.82[AFR][1000 genomes]
rs28440859	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28484956	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28565574	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28573387	0.80[AFR][1000 genomes]
rs28592657	0.82[AFR][1000 genomes]
rs28673055	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56728928	0.81[AFR][1000 genomes]
rs58284747	0.82[AFR][1000 genomes]
rs6779428	0.80[AFR][1000 genomes]
rs6795721	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6807838	0.82[AFR][1000 genomes]
rs72966895	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72968605	0.82[AFR][1000 genomes]
rs72968613	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72968638	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9809027	0.83[AMR][1000 genomes]
rs9811829	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9821458	0.82[AFR][1000 genomes]
rs9828087	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9828870	0.82[AFR][1000 genomes]
rs9833229	0.82[AFR][1000 genomes]
rs9836642	0.82[AFR][1000 genomes]
rs9849421	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9855713	0.82[AFR][1000 genomes]
rs9860140	0.81[AFR][1000 genomes]
rs9873807	0.82[AFR][1000 genomes]
rs9874208	0.82[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	esv3487859	chr3:118570588-119419623	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	esv3487860	chr3:118570588-119419623	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:118619800-118651400	Weak transcription	Skeletal Muscle Male	skeletal muscle
2	chr3:118620200-118663200	Weak transcription	Pancreas	Pancrea
3	chr3:118642000-118645000	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr3:118642200-118645000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr3:118642200-118647000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr3:118642200-118647200	Weak transcription	Ovary	ovary
7	chr3:118642600-118645000	Weak transcription	Brain Cingulate Gyrus	brain
8	chr3:118642800-118645000	Weak transcription	Brain Anterior Caudate	brain
9	chr3:118642800-118645200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr3:118642800-118651400	Weak transcription	Brain Angular Gyrus	brain
11	chr3:118643200-118651600	Weak transcription	Stomach Smooth Muscle	stomach
12	chr3:118643600-118647000	Weak transcription	Brain Hippocampus Middle	brain
13	chr3:118643800-118645200	Enhancers	Brain Substantia Nigra	brain
14	chr3:118644600-118645400	Strong transcription	Cortex derived primary cultured neurospheres	brain
15	chr3:118644600-118649000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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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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