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Protein

Protein PHYTOCHROME KINASE SUBSTRATE 1

Gene

PKS1

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

May be responsible for light-regulated cytoplasmic sequestration of phytochromes or may be a negative regulator of phytochrome B signaling. Component of the network that modulates the very low-fluence response (VLFR) branch of phyA signaling. Acts positively in PHOT1 signaling. Regulates phytochrome-mediated photomorphogenesis and hypocotyl phototropism. Involved in the control of leaf flattening and leaf positioning. Promotes negative root phototropism and negatively regulates root gravitropism. May act by controlling auxin homeostasis.5 Publications

Miscellaneous

PKS1, PKS2 and/or PKS4 are essential for phototropism but not for inhibition of gravitropism under long-term blue light irradiation.

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Biological processi

  • phototropism Source: TAIR
  • positive gravitropism Source: TAIR
  • red, far-red light phototransduction Source: TAIR
  • red or far-red light signaling pathway Source: TAIR
  • response to far red light Source: TAIR
  • response to red light Source: TAIR

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Biological processPhytochrome signaling pathway

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Protein PHYTOCHROME KINASE SUBSTRATE 1
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:PKS1
Ordered Locus Names:At2g02950
ORF Names:T17M13.12
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiArabidopsis thaliana (Mouse-ear cress)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri3702 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000006548 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 2

Organism-specific databases

Arabidopsis Information Portal

More...
Araporti
AT2G02950

The Arabidopsis Information Resource

More...
TAIRi
locus:2056695 AT2G02950

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cell membrane, Membrane

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

<p>This subsection of the ‘Pathology and Biotech’ section describes the in vivo effects caused by ablation of the gene (or one or more transcripts) coding for the protein described in the entry. This includes gene knockout and knockdown, provided experiments have been performed in the context of a whole organism or a specific tissue, and not at the single-cell level.<p><a href='/help/disruption_phenotype' target='_top'>More...</a></p>Disruption phenotypei

Increased hypocotyl growth inhibition and cotyledon unfolding responses in the very low fluence response (VLFR) mode. Reduced phototropic response. Reduced hyponasty when grown under blue light. Loss of negative root phototropism. Auxin accumulation in protoplasts.4 Publications

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00000584501 – 439Protein PHYTOCHROME KINASE SUBSTRATE 1Add BLAST439

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section specifies the position and type of each modified residue excluding <a href="http://www.uniprot.org/manual/lipid">lipids</a>, <a href="http://www.uniprot.org/manual/carbohyd">glycans</a> and <a href="http://www.uniprot.org/manual/crosslnk">protein cross-links</a>.<p><a href='/help/mod_res' target='_top'>More...</a></p>Modified residuei238PhosphoserineBy similarity1
Modified residuei244PhosphoserineBy similarity1

<p>This subsection of the <a href="http://www.uniprot.org/help/ptm_processing_section">PTM/processing</a> section describes post-translational modifications (PTMs). This subsection <strong>complements</strong> the information provided at the sequence level or describes modifications for which <strong>position-specific data is not yet available</strong>.<p><a href='/help/post-translational_modification' target='_top'>More...</a></p>Post-translational modificationi

Phosphorylated on Ser and to a lower extent on Thr by phytochromes. Phosphorylation is stimulated twofold by red light.2 Publications

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
Q9SWI1

PRoteomics IDEntifications database

More...
PRIDEi
Q9SWI1

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
Q9SWI1

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

<p>This subsection of the ‘Expression’ section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms. By default, the information is derived from experiments at the mRNA level, unless specified ‘at protein level’. <br></br>Examples: <a href="http://www.uniprot.org/uniprot/P92958#expression">P92958</a>, <a href="http://www.uniprot.org/uniprot/Q8TDN4#expression">Q8TDN4</a>, <a href="http://www.uniprot.org/uniprot/O14734#expression">O14734</a><p><a href='/help/tissue_specificity' target='_top'>More...</a></p>Tissue specificityi

Expressed in young seedlings in both darkness and light. Moderate in leaves and very low in roots and flowers. Expressed in the elongation zone of the root and hypocotyl.4 Publications

<p>This subsection of the ‘Expression’ section provides information on the expression of the gene product at various stages of a cell, tissue or organism development. By default, the information is derived from experiments at the mRNA level, unless specified ‘at the protein level’.<p><a href='/help/developmental_stage' target='_top'>More...</a></p>Developmental stagei

Decreases with development.1 Publication

<p>This subsection of the ‘Expression’ section reports the experimentally proven effects of inducers and repressors (usually chemical compounds or environmental factors) on the level of protein (or mRNA) expression (up-regulation, down-regulation, constitutive expression).<p><a href='/help/induction' target='_top'>More...</a></p>Inductioni

Up-regulated by white, red, far-red and blue light.2 Publications

Gene expression databases

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
Q9SWI1 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
Q9SWI1 AT

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Interacts with PKS2, RPT3, PHOT1, PHOT2 and the C-termini of both phytochromes A (phyA) and B (phyB). Binds both spectral forms of phytochrome, Pr and Pfr.4 Publications

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction_section%27">Interaction</a> section provides information about binary protein-protein interactions. The data presented in this section are a quality-filtered subset of binary interactions automatically derived from the <a href="http://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated on a monthly basis. Each binary interaction is displayed on a separate line.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

More...
BioGridi
225, 6 interactors

Database of interacting proteins

More...
DIPi
DIP-34783N

Protein interaction database and analysis system

More...
IntActi
Q9SWI1, 7 interactors

STRING: functional protein association networks

More...
STRINGi
3702.AT2G02950.1

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

Protein Model Portal of the PSI-Nature Structural Biology Knowledgebase

More...
ProteinModelPortali
Q9SWI1

Database of comparative protein structure models

More...
ModBasei
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes the position of regions of compositional bias within the protein and the particular amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi31 – 34Poly-Ser4
Compositional biasi365 – 369Poly-Ser5

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the PKS family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

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eggNOGi
ENOG410IXAU Eukaryota
ENOG4111ACR LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000115571

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q9SWI1

Identification of Orthologs from Complete Genome Data

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OMAi
FLTRQGS

Database of Orthologous Groups

More...
OrthoDBi
841461at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q9SWI1

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR039615 PKS
IPR039821 PSK1/PSK2

The PANTHER Classification System

More...
PANTHERi
PTHR33781 PTHR33781, 2 hits
PTHR33781:SF4 PTHR33781:SF4, 2 hits

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>.<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

Q9SWI1-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MVTLTPSSAS TPKTSFDFMK NNNSHSSLYV SSSSYLSSKE DALVTTKKLM
60 70 80 90 100
EPSKTLNMSI NPKQEEFGDE KKMVKKAPED PEIGVFGAEK YFNGDMDSDQ
110 120 130 140 150
GSSVLSLTNP EVERTVVDSK QSAKKSTGTP SVRSESSWNS QSVLLQNKLV
160 170 180 190 200
NSCNSSFKEK KNSNGQIQKV TNNKKSFLAN LGCKCACSDG DSVDVEEKTS
210 220 230 240 250
VKRSADPNIS VITMRSSADM NTELIKIQKQ EELSQRKSLE VFGSPVAIEK
260 270 280 290 300
KSSVVQKKLP LPPWKSRTEE DDTKSEGSDS SSDLFEIEGL TGNPKPFLTR
310 320 330 340 350
QGSDPASPTC YAPSEVSVEW SIVTASAADF SVMSECATSP VRRNRPTQIP
360 370 380 390 400
RIPITAKSAP QRRKSSSSSG GNGFLMSCKS HKSVMVSGDL DRRSSMNKTQ
410 420 430
PSYVPRFPME TTKPKSFETR RRISNSSISH TQSSLLYSQ
Length:439
Mass (Da):48,085
Last modified:May 10, 2002 - v2
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i7A0A825FF7D3F3FC
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti196E → D in AAD38033 (PubMed:10348744).Curated1

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AF149053 mRNA Translation: AAD38033.1
AC004138 Genomic DNA Translation: AAC32913.1
CP002685 Genomic DNA Translation: AEC05643.1
AF325064 mRNA Translation: AAK17132.1
AY052708 mRNA Translation: AAK96612.1
AY063721 mRNA Translation: AAL36071.1

Protein sequence database of the Protein Information Resource

More...
PIRi
E84442
T52304

NCBI Reference Sequences

More...
RefSeqi
NP_565292.1, NM_126347.3

UniGene gene-oriented nucleotide sequence clusters

More...
UniGenei
At.24751

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
AT2G02950.1; AT2G02950.1; AT2G02950

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
814823

Gramene; a comparative resource for plants

More...
Gramenei
AT2G02950.1; AT2G02950.1; AT2G02950

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ath:AT2G02950

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF149053 mRNA Translation: AAD38033.1
AC004138 Genomic DNA Translation: AAC32913.1
CP002685 Genomic DNA Translation: AEC05643.1
AF325064 mRNA Translation: AAK17132.1
AY052708 mRNA Translation: AAK96612.1
AY063721 mRNA Translation: AAL36071.1
PIRiE84442
T52304
RefSeqiNP_565292.1, NM_126347.3
UniGeneiAt.24751

3D structure databases

ProteinModelPortaliQ9SWI1
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi225, 6 interactors
DIPiDIP-34783N
IntActiQ9SWI1, 7 interactors
STRINGi3702.AT2G02950.1

PTM databases

iPTMnetiQ9SWI1

Proteomic databases

PaxDbiQ9SWI1
PRIDEiQ9SWI1

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT2G02950.1; AT2G02950.1; AT2G02950
GeneIDi814823
GrameneiAT2G02950.1; AT2G02950.1; AT2G02950
KEGGiath:AT2G02950

Organism-specific databases

AraportiAT2G02950
TAIRilocus:2056695 AT2G02950

Phylogenomic databases

eggNOGiENOG410IXAU Eukaryota
ENOG4111ACR LUCA
HOGENOMiHOG000115571
InParanoidiQ9SWI1
OMAiFLTRQGS
OrthoDBi841461at2759
PhylomeDBiQ9SWI1

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q9SWI1

Gene expression databases

ExpressionAtlasiQ9SWI1 baseline and differential
GenevisibleiQ9SWI1 AT

Family and domain databases

InterProiView protein in InterPro
IPR039615 PKS
IPR039821 PSK1/PSK2
PANTHERiPTHR33781 PTHR33781, 2 hits
PTHR33781:SF4 PTHR33781:SF4, 2 hits

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiPKS1_ARATH
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: Q9SWI1
Secondary accession number(s): O80610
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 10, 2002
Last sequence update: May 10, 2002
Last modified: January 16, 2019
This is version 105 of the entry and version 2 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
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