Variant report

Variant	rs6439397
Chromosome Location	chr3:132976782-132976783
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs11914347	0.87[AFR][1000 genomes]
rs1197280	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs1398761	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs1513369	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs1708388	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs1795109	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs1849504	0.87[AMR][1000 genomes]
rs1913283	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs2048628	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2370047	0.92[AFR][1000 genomes]
rs2370049	0.84[AFR][1000 genomes]
rs2699871	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs2887728	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs4298040	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs4618219	0.87[AFR][1000 genomes]
rs6439399	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6768513	0.86[AFR][1000 genomes]
rs7613727	0.81[AFR][1000 genomes]
rs7624059	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs938232	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs938233	0.87[AFR][1000 genomes];0.87[AMR][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	nsv530055	chr3:132380878-132982343	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv980103	chr3:132975869-132988869	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 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	chr3:132957200-132981400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr3:132968000-132984200	Weak transcription	Psoas Muscle	Psoas
3	chr3:132971400-132977600	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr3:132974800-132980400	Weak transcription	Fetal Brain Male	brain
5	chr3:132975200-132977400	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr3:132975600-132976800	Enhancers	Muscle Satellite Cultured Cells	--
7	chr3:132975600-132977600	Enhancers	NH-A	brain
8	chr3:132975600-132977800	Enhancers	Osteobl	bone
9	chr3:132975600-132979200	Enhancers	NHEK	skin
10	chr3:132975600-132979600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr3:132975800-132977200	Enhancers	HSMM	muscle
12	chr3:132975800-132977800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr3:132976000-132981200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr3:132976400-132987000	Weak transcription	Fetal Lung	lung

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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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