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 GSBRNA2T00131370001
Common NameGSBRNA2T00131370001, LOC106372607, LOC106429762
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family MYB
Protein Properties Length: 438aa    MW: 51315.4 Da    PI: 7.0253
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00131370001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding58.71.3e-18221267148
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                          +g WT+eEd +l+++v+++G + W+ Ia+ ++ gR +kqc++rw+++l
  GSBRNA2T00131370001 221 KGQWTAEEDRILIQLVEKYGLRKWSHIAQVLP-GRIGKQCRERWHNHL 267
                          799*****************************.*************97 PP
2Myb_DNA-binding521.6e-16273315145
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS
      Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 
                          +  W++eEd  l++ +k+ G++ W+ Ia++++ gRt++++k++w+
  GSBRNA2T00131370001 273 KETWSEEEDRVLIEFHKEIGNK-WAEIAKRLP-GRTENSIKNHWN 315
                          578*******************.*********.***********8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129430.067216271IPR017930Myb domain
SuperFamilySSF466891.37E-32219314IPR009057Homeodomain-like
SMARTSM007173.7E-18220269IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.7E-26222271IPR009057Homeodomain-like
CDDcd001672.40E-16224267No hitNo description
PfamPF139211.3E-20224281No hitNo description
Gene3DG3DSA:1.10.10.603.5E-22272320IPR009057Homeodomain-like
PROSITE profilePS5129421.16272322IPR017930Myb domain
SMARTSM007174.8E-16272320IPR001005SANT/Myb domain
CDDcd001672.50E-12275318No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010183Biological Processpollen tube guidance
GO:0045697Biological Processregulation of synergid differentiation
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 438 aa     Download sequence    Send to blast
MENYVDESGF APLNQTIFTR DQEHMKEEDF PFEVVDQSKP TSFLQDFHHL DHDNQFDHHH  60
HHHHHHQYHG STSSNPLFGI QTTSSCANNN PYQHCSYQEN MVDFYETKPQ VMNHHFQAAE  120
NPYFTRNHHQ EINLVDDHDH MNLEQNNMMM MRMIPFDYPP TETINKPMNF VMPDEVSCVS  180
ADNNSYRAMS FNKTKPFLTR KLSSSSSSSS WKGKKKTTLV KGQWTAEEDR ILIQLVEKYG  240
LRKWSHIAQV LPGRIGKQCR ERWHNHLRPD IKKETWSEEE DRVLIEFHKE IGNKWAEIAK  300
RLPGRTENSI KNHWNATKRR QFSKRKCRSK YPRPSLLQDY IKSLDVGVLS SSSVPARGRR  360
KESSKKKDVV AVEEKKKEKE KEKEKGDEFY GQDRIVPECV FTDDFGFNEK LLEEGCSIDS  420
LLDDLPQPDI DAFVHGI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1mse_C4e-452193222105C-Myb DNA-Binding Domain
1msf_C4e-452193222105C-Myb DNA-Binding Domain
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in cellularized but not uncellularized female gametophytes. {ECO:0000269|PubMed:16214903}.
UniprotTISSUE SPECIFICITY: Expressed at high levels in the synergid cells of the female gametophyte, and at lower levels in the endosperm of young seeds and the trichomes of young leaves and sepals. {ECO:0000269|PubMed:16214903, ECO:0000269|PubMed:17693534}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that binds to the motif 5'-GTAACNT-3' in the promoter of target genes (e.g. DD11 and DD18) and promotes their expression within synergid cells (e.g. in the filiform apparatus) in ovules (PubMed:16214903, PubMed:17693534, PubMed:18410484, PubMed:17937500). Required for the formation of the filiform apparatus during synergid cell differentiation in the female gametophyte (PubMed:16214903). Involved in pollen tube guidance to the micropyle (PubMed:16214903, PubMed:17937500, PubMed:23093426). {ECO:0000269|PubMed:16214903, ECO:0000269|PubMed:17693534, ECO:0000269|PubMed:17937500, ECO:0000269|PubMed:18410484, ECO:0000269|PubMed:23093426}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00442DAPTransfer from AT4G18770Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00131370001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF1760030.0AF176003.2 Arabidopsis thaliana putative transcription factor (MYB98) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013668307.10.0transcription factor MYB98-like
RefseqXP_013725967.10.0transcription factor MYB98-like
SwissprotQ9S7L20.0MYB98_ARATH; Transcription factor MYB98
TrEMBLA0A398AKA50.0A0A398AKA5_BRACM; Uncharacterized protein
STRINGBra013346.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM58692847
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G18770.10.0myb domain protein 98
Publications ? help Back to Top
  1. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  2. Mendes MA, et al.
    Live and let die: a REM complex promotes fertilization through synergid cell death in Arabidopsis.
    Development, 2016. 143(15): p. 2780-90
    [PMID:27338615]