Variant report

Variant	rs421500
Chromosome Location	chr6:133228839-133228840
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1124450	0.84[MEX][hapmap]
rs12200907	0.88[MEX][hapmap]
rs1323714	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1359142	0.88[MEX][hapmap]
rs1408062	0.81[CEU][hapmap]
rs1674714	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2021633	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs379362	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs392493	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs396268	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs405572	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs451165	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4897617	0.83[MEX][hapmap]
rs6926217	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7756588	0.88[MEX][hapmap]
rs7756801	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9373030	0.83[MEX][hapmap]
rs9493474	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.82[EUR][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	nsv532069	chr6:132776411-133462292	Active TSS Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv1015742	chr6:132933666-133285852	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	71 gene(s)	inside rSNPs	diseases
3	nsv869855	chr6:133190265-133244259	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs421500	TAAR5	cis	parietal	SCAN
rs421500	SAMD3	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133224200-133229000	Weak transcription	Fetal Lung	lung
2	chr6:133228000-133229400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr6:133228000-133229400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr6:133228400-133229000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr6:133228400-133229200	Enhancers	HSMMtube	muscle
6	chr6:133228400-133229400	Enhancers	NHDF-Ad	bronchial
7	chr6:133228600-133229200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr6:133228600-133229200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
9	chr6:133228600-133229200	Flanking Active TSS	NHLF	lung
10	chr6:133228600-133229800	Enhancers	NH-A	brain
11	chr6:133228800-133229200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr6:133228800-133229200	Flanking Active TSS	Osteobl	bone
13	chr6:133228800-133229600	Enhancers	HMEC	breast
14	chr6:133228800-133229800	Enhancers	HSMM	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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