PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Solyc04g005710.1.1
Common NameLOC101266212
Organism
Solanum lycopersicum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family MYB
Protein Properties Length: 428aa    MW: 48602.3 Da    PI: 8.3572
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc04g005710.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding38.62.5e-122166348
                        SS-HHHHHHHHHHHHHTTTT.-HHHHHHHHTTTS-HHHHHHHHHHHT CS
     Myb_DNA-binding  3 rWTteEdellvdavkqlGgg.tWktIartmgkgRtlkqcksrwqkyl 48
                        +W++eEd++l + ++ +G + +W+ Ia+ +   +t  qck rw++yl
  Solyc04g005710.1.1 21 SWSQEEDDILREQIRIHGIDdNWTIIASNFK-DKTTRQCKRRWFTYL 66
                        6*****************************9.*************97 PP
2Myb_DNA-binding42.12e-1372114145
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS
     Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 
                         +g W++eEd ll  a k +G++ W+ Ia+ +  gRt++ +k+r+ 
  Solyc04g005710.1.1  72 KGGWSPEEDMLLCAAQKIFGNR-WTEIAKVVS-GRTDNAVKNRFT 114
                         688*******************.*********.**********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129411.7361466IPR017930Myb domain
SMARTSM007174.8E-111868IPR001005SANT/Myb domain
CDDcd001672.17E-102166No hitNo description
PfamPF139215.7E-142283No hitNo description
Gene3DG3DSA:1.10.10.602.2E-192273IPR009057Homeodomain-like
SuperFamilySSF466892.47E-2446126IPR009057Homeodomain-like
PROSITE profilePS5129419.7967121IPR017930Myb domain
SMARTSM007172.7E-1471119IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.3E-1974120IPR009057Homeodomain-like
CDDcd001674.34E-1075116No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 428 aa     Download sequence    Send to blast
MKKTKGNNCD GAKPKERHIV SWSQEEDDIL REQIRIHGID DNWTIIASNF KDKTTRQCKR  60
RWFTYLNSDF KKGGWSPEED MLLCAAQKIF GNRWTEIAKV VSGRTDNAVK NRFTTICKKK  120
AKHEAMAEEN RVTLSDKLDT DRICDVSAKK LRRSRTIESS VDDCPNNNQP VRHPFAVLAQ  180
NVNNLKETYE NGTVLKKNDR NMLMQQGSLA LKVNSENSNQ RLENAWMVVD DFLHRMKEGD  240
MLKFRHTEMN SAHNTHKNLI TNSSSNERNR SSKRQLALSQ ESGDSSEYNT GSTQLSRALS  300
NKTEESQVKT CTHDQEIQSG LQNSQISDQT GVQELENGIF CDLSFPHDTR SVCDEMKHND  360
VSATDGCEYP SPLQVTPQFR SLAEAIPSPK FSESERQFLL KTLGVESTSP HRTTKPPSCK  420
RALLQSL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A5e-242212110108B-MYB
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed at the transition to terminal stomatal differentiation, just before and after the symmetric division of stomatal differentiation, being confined to late-stage guard mother cells (GMC) and to young, still differentiating guard cells (PubMed:16155180, PubMed:24571519). Detected in unopened flower buds, at the bases of sepals, petals, and stamens and in the receptacle of carpels, as well as both in style and stigma. Present at strong levels in the placenta within the ovary. Accumulates during ovule development in a dynamic pattern; first observed at high levels in the funiculus once integument outgrowth has begun and persists into later stages. Also expressed in the nucellus of younger ovules, especially in the megaspore mother cell (MMC) and in epidermal cells. Present in integuments, in the endothelial layer and the outer layer of the outer integument, which will form the mucilage-containing seed coat cells (PubMed:22915737). In developing embryos, first detected in cells in the ground tissue meristem at the early heart stage accumulates in the torpedo stage. In mature embryos, expressed in the embryonic hypocotyl and root tip. In seedlings, present first in the lower part of the hypocotyl and in the root tip, and later in petioles of cotyledons, young leaves, and lateral root primordia, near the pericycle. In young plants, strongly expressed in petioles of young leaves and cotyledons, especially in veins, in the basal part of young first leaves and cotyledons, and in root tips of lateral roots. Detected in the phloem, as well as in the cortex of inflorescence stems (PubMed:26391711). In roots, present in the root tip in columella cells, specifically in the lower tier of columella cells, as well as in developing metaxylem (PubMed:26391711, PubMed:26578169). Widely expressed in freshly emerged lateral roots. In elongating lateral roots, confined at high levels transiently in columella cells until differentiation (PubMed:26578169). Expressed at the base of developing flowers, including ovaries. In flowers, detected in ovaries, receptacles, and transiently, in anthers, and, later, in filaments. Also detected in the valve margins and receptacles of siliques and at the joint between the stigma and the style, as well as in the tapetum around pollen grains in maturing anthers (PubMed:26391711). {ECO:0000269|PubMed:16155180, ECO:0000269|PubMed:22915737, ECO:0000269|PubMed:24571519, ECO:0000269|PubMed:26391711, ECO:0000269|PubMed:26578169}.
UniprotTISSUE SPECIFICITY: Expressed in all shoot organs with higher levels in leaves, stems, flowers, siliques and floral buds. Also detected in roots tips. {ECO:0000269|PubMed:16155180, ECO:0000269|PubMed:26391711}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that binds to DNA in promoters cis-regulatory element 5'-GGCGCGC-3' of cell cycle genes, including cyclins, cyclin-dependent kinases (CDKs), and components of the pre-replication complex (PubMed:20675570, PubMed:24687979). Binds to DNA in promoters cis-regulatory element 5'-AGCCG-3' of auxin regulated genes (e.g. PIN3 and PIN7) (PubMed:26578169). Together with FAMA and MYB88, ensures that stomata contain just two guard cells (GCs) by enforcing a single symmetric precursor cell division before stomatal maturity (PubMed:24571519). Represses the expression of the mitosis-inducing factors CDKB1-1 and CDKA-1, specifically required for the last guard mother cells (GMC) symmetric divisions in the stomatal pathway (PubMed:20675570, PubMed:24687979). Represses CYCA2-3 in newly formed guard cells (PubMed:21772250). Together with MYB88, regulates stomata spacing by restricting divisions late in the stomatal cell lineage thus limiting the number of GMC divisions (PubMed:11536724, PubMed:9684356, PubMed:16155180, PubMed:24123248). In collaboration with CDKB1-1 and CDKB1-2, restrict the G1/S transition and chloroplast and nuclear number during stomatal formation, and normally maintain fate and developmental progression throughout the stomatal cell lineage (PubMed:24123248). Also involved in the shape regulation of pavement cells (PubMed:9684356). Involved in sensing and/or transducing abiotic stress (e.g. drought and salt), probably via the positive regulation of NAC019 (PubMed:21105921). Regulates female reproduction being required for entry into megasporogenesis, probably via the regulation of cell cycle genes (PubMed:22915737). Promotes histone H3K27me3 marks and represses stem cell gene expression (PubMed:24654956). Required for lateral roots (LRs) initiation via the regulation of PIN3 expression in an auxin-dependent manner (PubMed:26578065). Involved in responses to gravity stimulation in primary roots by regulating the transcription of PIN3 and PIN7 in gravity-sensing cells, thus modulating auxin asymmetric redistribution (PubMed:26578169). {ECO:0000269|PubMed:11536724, ECO:0000269|PubMed:16155180, ECO:0000269|PubMed:20675570, ECO:0000269|PubMed:21105921, ECO:0000269|PubMed:21772250, ECO:0000269|PubMed:22915737, ECO:0000269|PubMed:24123248, ECO:0000269|PubMed:24571519, ECO:0000269|PubMed:24654956, ECO:0000269|PubMed:24687979, ECO:0000269|PubMed:26578065, ECO:0000269|PubMed:26578169, ECO:0000269|PubMed:9684356}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc04g005710.1.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Strongly induced by auxin in a IAA14/SLR1 and ARF7 dependent manner, especially in xylem pole pericycle cells, lateral roots initiating cells. {ECO:0000269|PubMed:26578065}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankCU2800451e-122S.lycopersicum DNA sequence from clone SL_MboI-98C7 on chromosome 4, complete sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025886221.10.0transcription factor MYB124-like
SwissprotQ94FL61e-119MY124_ARATH; Transcription factor MYB124
TrEMBLM1CJI20.0M1CJI2_SOLTU; Uncharacterized protein
STRINGSolyc04g005710.1.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA41242134
Representative plantOGRP54161421
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G14350.21e-110MYB family protein
Publications ? help Back to Top
  1. Yang M,Sack FD
    The too many mouths and four lips mutations affect stomatal production in Arabidopsis.
    Plant Cell, 1995. 7(12): p. 2227-39
    [PMID:11536724]
  2. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]
  3. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  4. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  5. Yang K, et al.
    Requirement for A-type cyclin-dependent kinase and cyclins for the terminal division in the stomatal lineage of Arabidopsis.
    J. Exp. Bot., 2014. 65(9): p. 2449-61
    [PMID:24687979]
  6. Yang M
    The FOUR LIPS (FLP) and MYB88 genes conditionally suppress the production of nonstomatal epidermal cells in Arabidopsis cotyledons.
    Am. J. Bot., 2016. 103(9): p. 1559-66
    [PMID:27620181]
  7. Xie Y, et al.
    An atypical R2R3 MYB transcription factor increases cold hardiness by CBF-dependent and CBF-independent pathways in apple.
    New Phytol., 2018. 218(1): p. 201-218
    [PMID:29266327]