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 RrC5096_p1
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family MYB
Protein Properties Length: 346aa    MW: 37830.7 Da    PI: 9.2424
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC5096_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding52.98.3e-1758103147
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                      +g+W++e d  l ++vk+lG ++W++Iar ++ gR++k+c++rw + 
       RrC5096_p1  58 KGPWSAEQDAVLTRLVKKLGARNWTLIARGIP-GRSGKSCRLRWCNQ 103
                      79******************************.***********985 PP
2Myb_DNA-binding52.51.1e-16110153146
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                      r+++T+eE+ ll  a + +G++ W+ Ia+ ++ gRt++ +k++w++
       RrC5096_p1 110 RKPFTEEEENLLMSAQAVHGNK-WSVIAKLLP-GRTDNAIKNHWNS 153
                      789*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129418.71653104IPR017930Myb domain
SuperFamilySSF466891.32E-2955151IPR009057Homeodomain-like
SMARTSM007172.9E-1457106IPR001005SANT/Myb domain
PfamPF002493.4E-1558103IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.606.8E-2459111IPR009057Homeodomain-like
CDDcd001673.40E-1360102No hitNo description
PROSITE profilePS5129425.231105159IPR017930Myb domain
SMARTSM007172.9E-15109157IPR001005SANT/Myb domain
PfamPF002494.5E-15110153IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.8E-23112158IPR009057Homeodomain-like
CDDcd001671.03E-11112152No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009555Biological Processpollen development
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 346 aa     Download sequence    Send to blast
MNSKTVIQIP PANPSFDDSS EVAINAAVDL ELAAAIGVGG GGGREDNSNG GGGRSKAKGP  60
WSAEQDAVLT RLVKKLGARN WTLIARGIPG RSGKSCRLRW CNQLDPCLKR KPFTEEEENL  120
LMSAQAVHGN KWSVIAKLLP GRTDNAIKNH WNSALKRKHA DLWNSHHSIS KTLTPHIVRK  180
ASSSSHKEET NYPQPSPILT DVKTEDEASK PREGKCKPGG VYRPVARLGA FSVYKPTGYM  240
NHRIAPCEGP LVQVARPNSL AGQFLHSLCY QPNVPSRCGR GCCNQQEDKR LSSSSVLGPE  300
FVDYEEPSYV GLDQELVSIA TDLNNIAWIR SGLNNSYSRE NIEISR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A1e-36571586107B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtRequired for male gametophyte (pollen) development. {ECO:0000269|PubMed:22101548}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: May be the target of the microRNA (miRNA) MIR393a. {ECO:0000269|PubMed:15258262}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018437041.10.0PREDICTED: uncharacterized protein LOC108809394
SwissprotO041921e-124MYB25_ARATH; Transcription factor MYB25
TrEMBLA0A078G5500.0A0A078G550_BRANA; BnaC04g05500D protein
STRINGBo4g025810.11e-176(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM56382747
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G55730.11e-125myb domain protein 109
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. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]