Variant report

Variant	rs159746
Chromosome Location	chr5:58145292-58145293
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 3 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs17280636	1.00[CHD][hapmap]
rs299916	1.00[CEU][hapmap];1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2830363	chr5:57893949-58555491	Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs159746	GAPT	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58140000-58146600	Weak transcription	Psoas Muscle	Psoas
2	chr5:58141200-58145800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr5:58143000-58145800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr5:58144000-58152600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr5:58144200-58147800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr5:58144600-58146200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr5:58144600-58147200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr5:58144600-58147600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr5:58144800-58145800	Enhancers	Fetal Lung	lung
10	chr5:58144800-58146000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr5:58144800-58146200	Enhancers	Brain Hippocampus Middle	brain
12	chr5:58145000-58146400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr5:58145200-58146200	Enhancers	Brain Angular Gyrus	brain
14	chr5:58145200-58146400	Enhancers	Pancreatic Islets	Pancreatic Islet

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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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