SPI BEACH-DOMAIN HOMOLOG A1 [Arabidopsis thaliana (thale cress)] - Gene

Summary

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Official Symbol: SPI
Official Full Name: BEACH-DOMAIN HOMOLOG A1
Primary source: TAIR:AT1G03060
Locus tag: AT1G03060
See related: Araport:AT1G03060
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Arabidopsis thaliana (ecotype: Columbia)
Lineage: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as: F10O3.12; F10O3_12; SPIRRIG
Summary: Encodes a WD/BEACH domain protein involved in cell morphogenesis.
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Genomic context

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See SPI in Genome Data Viewer

Location:: chromosome: 1

Exon count:: 19

Sequence:: Chromosome: 1; NC_003070.9 (712440..727553, complement)

Chromosome 1 - NC_003070.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003070.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

regulates the salt stress-dependent post-transcriptional stabilization, cytoplasmic agglomeration, and localization to P-bodies of a subset of salt stress-regulated mRNAs
Title: The BEACH Domain Protein SPIRRIG Is Essential for Arabidopsis Salt Stress Tolerance and Functions as a Regulator of Transcript Stabilization and Localization.
spi mutants have highly fragmented vacuoles in root hairs, suggesting that SPI has a function in membrane fusion or membrane composition.
Title: The cell morphogenesis gene SPIRRIG in Arabidopsis encodes a WD/BEACH domain protein.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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NM_100188.1

Supported by ESTs:

Gene Ontology Provided by TAIR

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within P-body assembly	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cellular response to salt stress	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within mucilage extrusion from seed coat	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within multidimensional cell growth	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of root hair elongation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of intracellular mRNA localization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of vacuolar transport	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within trichome morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within vacuole organization	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in P-body	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
colocalizes_with endosome	IPI Inferred from Physical Interaction more info	PubMed
located_in nucleus	ISM Inferred from Sequence Model more info
located_in root hair tip	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: BEACH-DOMAIN HOMOLOG A1

NP_171805.1

SPIRRIG (SPI); FUNCTIONS IN: binding; INVOLVED IN: signal transduction, multidimensional cell growth, vacuole organization, trichome morphogenesis; LOCATED IN: cellular_component unknown; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: WD40 repeat 2 (InterPro:IPR019782), Beige/BEACH (InterPro:IPR000409), WD40 repeat, conserved site (InterPro:IPR019775), WD40 repeat (InterPro:IPR001680), WD40 repeat-like-containing domain (InterPro:IPR011046), WD40-repeat-containing domain (InterPro:IPR017986), WD40/YVTN repeat-like-containing domain (InterPro:IPR015943), Armadillo-type fold (InterPro:IPR016024), WD40 repeat, subgroup (InterPro:IPR019781); BEST Arabidopsis thaliana protein match is: Beige/BEACH domain; WD domain, G-beta repeat protein (TAIR:AT4G02660.1); Has 8491 Blast hits to 6383 proteins in 382 species: Archae - 4; Bacteria - 1376; Metazoa - 3669; Fungi - 1335; Plants - 868; Viruses - 0; Other Eukaryotes - 1239 (source: NCBI BLink).

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_003070.9 Reference assembly

Range

712440..727553 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001331381.1 → NP_001322129.1 BEACH-DOMAIN HOMOLOG A1 [Arabidopsis thaliana]

Status: REVIEWED

UniProtKB/TrEMBL

A0A178W7I4, A0A1P8AT57, A0A384L2B6, A0A5S9SCV5

Conserved Domains (5) summary

smart01026
Location:2964 → 3243

Beach; Beige/BEACH domain

cd01201
Location:2762 → 2928

PH_BEACH; Pleckstrin homology domain in BEACH domain containing proteins

sd00039
Location:3332 → 3377

7WD40; WD40 repeat [structural motif]

cl22861
Location:1119 → 1225

LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

cl29593
Location:3303 → 3559

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
NM_001331382.1 → NP_001322128.1 BEACH-DOMAIN HOMOLOG A1 [Arabidopsis thaliana]

Status: REVIEWED

UniProtKB/TrEMBL

A0A1P8AT19, A0A5S9SCV5
NM_001331383.1 → NP_001322130.1 BEACH-DOMAIN HOMOLOG A1 [Arabidopsis thaliana]

Status: REVIEWED

UniProtKB/TrEMBL

A0A1P8AT16, A0A5S9SCV5
NM_100188.1 → NP_171805.1 BEACH-DOMAIN HOMOLOG A1 [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_171805.1

Status: REVIEWED

UniProtKB/Swiss-Prot

F4HZB2, Q9SA64

UniProtKB/TrEMBL

A0A5S9SCV5

Conserved Domains (6) summary

COG2319
Location:3307 → 3579

WD40; WD40 repeat [General function prediction only]

cd01201
Location:2763 → 2929

PH_BEACH; Pleckstrin homology domain in BEACH domain containing proteins

pfam02138
Location:2965 → 3244

Beach; Beige/BEACH domain

sd00039
Location:3333 → 3378

7WD40; WD40 repeat [structural motif]

cl02567
Location:3304 → 3560

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

cl22861
Location:1120 → 1224

LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...