Variant report

Variant	rs16824392
Chromosome Location	chr3:115735816-115735817
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10212425	1.00[EUR][1000 genomes]
rs11915447	1.00[CEU][hapmap];0.91[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11918675	1.00[EUR][1000 genomes]
rs11922225	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1920369	1.00[CEU][hapmap]
rs2141625	1.00[CEU][hapmap]
rs6770422	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6794899	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs6795148	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9681792	1.00[CEU][hapmap]

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	nsv931948	chr3:114884574-115802562	Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	esv2760762	chr3:115476222-115807650	Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv829685	chr3:115643521-115812913	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv1012260	chr3:115680931-115935968	Enhancers Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	esv2756413	chr3:115721898-115908480	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:115719600-115742600	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr3:115722800-115739400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:115726200-115738200	Weak transcription	NHDF-Ad	bronchial
4	chr3:115731800-115739600	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr3:115733800-115736400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr3:115734800-115736200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr3:115734800-115746200	Weak transcription	Colon Smooth Muscle	Colon
8	chr3:115735000-115738400	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr3:115735000-115739400	Weak transcription	Brain Anterior Caudate	brain
10	chr3:115735600-115739600	Weak transcription	Brain Substantia Nigra	brain
11	chr3:115735800-115736000	Enhancers	Brain Inferior Temporal Lobe	brain
12	chr3:115735800-115736200	Enhancers	H9 Derived Neuronal Progenitor 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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