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Gene : SBH1 A. thaliana

Gene ID  ? AT1G69640
Brief Description  sphingoid base hydroxylase 1  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? sphingoid base hydroxylase 1 (SBH1); CONTAINS InterPro DOMAIN/s: Fatty acid hydroxylase (InterPro:IPR006694); BEST Arabidopsis thaliana protein match is: sphingoid base hydroxylase 2 (TAIR:AT1G14290.1).  Source: TAIR, Jun 30, 2015.
Curator Summary  ? Encodes one of the two redundant sphingoid base hydroxylases (SBH). Involved in sphingolipid trihydroxy long-chain base (4-hydroxysphinganine) biosynthesis. Double mutants of SBHs were dwarfed and not able to progress from vegetative to reproductive growth.  Source: TAIR, Jun 30, 2015.
Name  ? sphingoid base hydroxylase 1

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1 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
Double mutants and RNA interference of SBH1 and SBH2 displayed reductions in growth that were dependent on the content of trihydroxy LCBs in sphingolipids. [SBH1] 18612100

Genomics

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12 Flanking Regions

Flank size: from most upstream transcription start site, or most downstream transcription stop site

Region Name Flank Size Direction Length Gene Included? Chromosome Location
AT1G69640 0.5kb upstream 0.5kb upstream 2609   true Chr1: 26193618-26196226
AT1G69640 0.5kb upstream 0.5kb upstream 500   false Chr1: 26195727-26196226
AT1G69640 0.5kb downstream 0.5kb downstream 2609   true Chr1: 26193118-26195726
AT1G69640 0.5kb downstream 0.5kb downstream 500   false Chr1: 26193118-26193617
AT1G69640 1.0kb upstream 1.0kb upstream 3109   true Chr1: 26193618-26196726
AT1G69640 1.0kb upstream 1.0kb upstream 1000   false Chr1: 26195727-26196726
AT1G69640 1.0kb downstream 1.0kb downstream 3109   true Chr1: 26192618-26195726
AT1G69640 1.0kb downstream 1.0kb downstream 1000   false Chr1: 26192618-26193617
AT1G69640 3.0kb upstream 3.0kb upstream 5109   true Chr1: 26193618-26198726
AT1G69640 3.0kb upstream 3.0kb upstream 3000   false Chr1: 26195727-26198726
AT1G69640 3.0kb downstream 3.0kb downstream 5109   true Chr1: 26190618-26195726
AT1G69640 3.0kb downstream 3.0kb downstream 3000   false Chr1: 26190618-26193617

Proteins

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Function

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2 Pathways

Data Source: KEGG

Identifier Name
01100 Metabolic pathways
00600 Sphingolipid metabolism

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Expression

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Interactions

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11 Data Sets

Name Description Version
BAR Annotations Lookup Mapping(s) between AGI locus and Affy Probeset identifier 10/08/2013
Genome Annotation Araport11 protein-coding, non-coding and transposable element genes Araport11 (06/2016)
RNA-seq expression Measure of gene expression levels (Transcripts per Million, TPM) quantified by Salmon Araport11 (06/2016)
PubMed to gene mapping Curated associations between publications and NCBI Gene records 8/12/2016
GO Annotation from TIGR GO annotations assigned by TIGR Arabidopsis annotation effort 8/01/2016
PO Annotation from TAIR Literature-based annotations of genes to Plant Ontology (PO) terms 06/30/2015
Swiss-Prot data set High-quality, manually annotated, non-redundant protein sequence database 2016_07
Panther data set PANTHER paralogs from Arabidopsis 11.0
KEGG pathways data set Wiring diagrams of molecular interactions, reactions, and relations 79.0
GeneRIF Concise phrase describing gene function and publication associated with NCBI Gene records 8/12/2016
BioGRID interaction data set Curated set of genetic and physical interactions for Arabidopsis thaliana 3.4.139