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 Glyma.06G300000.1.p
Common NameGLYMA_06G300000, LOC100776043
Organism
Glycine max
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
Family MYB
Protein Properties Length: 161aa    MW: 18795 Da    PI: 10.6843
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.06G300000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding538.1e-171461148
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                         +g+W+ eEde+l  +vk++G  +W+  ++  g+ R++k+c++rw++yl
  Glyma.06G300000.1.p 14 KGAWSREEDEKLTAYVKRHGHSNWRQLPKFAGLARCGKSCRLRWLNYL 61
                         79********************************************97 PP
2Myb_DNA-binding53.65.2e-1768111247
                          SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
      Myb_DNA-binding   2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                          g+ T eE+++++++++++G++ W++Ia++++ gRt++++k++w+ +
  Glyma.06G300000.1.p  68 GNYTLEEEKIIIKLHQEFGNK-WSLIAEKLP-GRTDNEVKNYWHGH 111
                          789******************.*********.***********966 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129416.499961IPR017930Myb domain
SuperFamilySSF466895.03E-3111108IPR009057Homeodomain-like
SMARTSM007171.3E-121363IPR001005SANT/Myb domain
PfamPF002495.2E-151461IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.6E-231568IPR009057Homeodomain-like
CDDcd001671.08E-91661No hitNo description
PROSITE profilePS5129424.23262116IPR017930Myb domain
SMARTSM007173.6E-1666114IPR001005SANT/Myb domain
PfamPF002491.2E-1568111IPR001005SANT/Myb domain
CDDcd001674.67E-1169112No hitNo description
Gene3DG3DSA:1.10.10.603.4E-2569114IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 161 aa     Download sequence    Send to blast
MVRAPFYDKN GLKKGAWSRE EDEKLTAYVK RHGHSNWRQL PKFAGLARCG KSCRLRWLNY  60
LRPNLKHGNY TLEEEKIIIK LHQEFGNKWS LIAEKLPGRT DNEVKNYWHG HLKKIKSNEI  120
TTSKLKSKPG YSIEVNQMRL INVKNLKALM LMLVMTSLIF *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A3e-26121145106B-MYB
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In nonelongating internodes, highly expressed in interfascicular fibers and xylem cells but not in parenchymatous pith cells. In elongating internodes, predominantly expressed in protoxylem vessels. {ECO:0000269|PubMed:19122102}.
UniprotTISSUE SPECIFICITY: Expressed in leaves (PubMed:9839469). Specifically expressed in fibers and vessels undergoing secondary wall thickening, especially in inflorescence stems (PubMed:19122102). {ECO:0000269|PubMed:19122102, ECO:0000269|PubMed:9839469}.
UniprotTISSUE SPECIFICITY: Highly expressed in roots and at lower levels in stems, flowers and siliques. {ECO:0000269|PubMed:24902892}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250|UniProtKB:Q9M2D9}.
UniProtTranscriptional activator that binds DNA to the AC cis-elements 5'-ACCTACC-3', 5'-ACCAACC-3' and 5'-ACCTAAC-3' of promoters and specifically activates lignin biosynthetic genes during secondary wall formation mediated by SND1. {ECO:0000269|PubMed:19122102}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGlyma.06G300000.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by gravity in roots. {ECO:0000269|PubMed:24902892}.
UniProtINDUCTION: Slightly induced by light (PubMed:9839469). Regulated by the SND1 close homologs NST1, NST2, VND6, and VND7 and their downstream targets MYB46 and MYB83 (PubMed:19122102, PubMed:22197883). {ECO:0000269|PubMed:19122102, ECO:0000269|PubMed:22197883, ECO:0000269|PubMed:9839469}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0150394e-59AP015039.1 Vigna angularis var. angularis DNA, chromosome 6, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_014632646.11e-115transcription factor MYB58
SwissprotQ9SA472e-53MYB58_ARATH; Transcription factor MYB58
SwissprotQ9SBF37e-53MYB92_ARATH; Transcription factor MYB92
TrEMBLK7KY771e-114K7KY77_SOYBN; Uncharacterized protein
STRINGGLYMA06G45531.11e-115(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF35633186
Representative plantOGRP5171784
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G16490.17e-56myb domain protein 58
Publications ? help Back to Top
  1. 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]
  2. Fernández-Pérez F,Vivar T,Pomar F,Pedreño MA,Novo-Uzal E
    Peroxidase 4 is involved in syringyl lignin formation in Arabidopsis thaliana.
    J. Plant Physiol., 2015. 175: p. 86-94
    [PMID:25506770]
  3. Noda S, et al.
    The expression of a rice secondary wall-specific cellulose synthase gene, OsCesA7, is directly regulated by a rice transcription factor, OsMYB58/63.
    Planta, 2015. 242(3): p. 589-600
    [PMID:26070439]
  4. Takeuchi M,Kegasa T,Watanabe A,Tamura M,Tsutsumi Y
    Expression analysis of transporter genes for screening candidate monolignol transporters using Arabidopsis thaliana cell suspensions during tracheary element differentiation.
    J. Plant Res., 2018. 131(2): p. 297-305
    [PMID:28921082]