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 XP_009130676.1
Organism
Brassica rapa
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 TALE
Protein Properties Length: 570aa    MW: 61533.1 Da    PI: 8.0079
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009130676.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox27.36.1e-093633952254
                     SSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHH CS
        Homeobox  22 nrypsaeereeLAkklgLterqVkvWFqNrRak 54 
                     ++yp+ +++  LAk++gL+ +qV++WF N R +
  XP_009130676.1 363 HPYPTDTDKLVLAKQTGLSRNQVSNWFINARVR 395
                     89*****************************87 PP
2BELL105.92.6e-34218287372
            BELL   3 qelqkkkakLlslleeVdkrYkqyveqlqtvissFeavaglgsakpYtslAlkaiSrhFrcLkdaiaeqi 72 
                     +e+ kkk+kL+s+l+e +krYkqy+eqlq+v++sFe+vaglg+a+pY+sl lka+S+hF+cLk+ai++q+
  XP_009130676.1 218 EEHGKKKSKLISMLDEAYKRYKQYYEQLQAVMGSFECVAGLGHAAPYASLTLKALSKHFKCLKTAITDQL 287
                     6899***************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005743.5E-62162285IPR006563POX domain
PfamPF075264.6E-33167284IPR006563POX domain
SMARTSM003895.1E-9339403IPR001356Homeobox domain
CDDcd000862.04E-11339400No hitNo description
SuperFamilySSF466891.5E-16341406IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.604.4E-26343403IPR009057Homeodomain-like
PfamPF059206.7E-18356395IPR008422Homeobox KN domain
PROSITE profilePS5007111.483358399IPR001356Homeobox domain
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: 570 aa     Download sequence    Send to blast
MHAYEPYHVL QQSRRDKLRI PSLDSHFHFH HPPPPSFSGG GLFPLAGSDY LAAGGFHSNS  60
NNHISNPSYS NFMGFLGGPS SSSSAAVTVA GDPSFNGELS SGDVLVFRPE PLSLSLSSHP  120
RLAYDPVVPG AVSSGFSRSA SEAAAAAVTV ASRSSGPLGP FTGYASILKG SRFLKPAQML  180
LDEFCNVGRG VYTDKVMDDD DSSLLFDPTV ETLCGVSEEH GKKKSKLISM LDEAYKRYKQ  240
YYEQLQAVMG SFECVAGLGH AAPYASLTLK ALSKHFKCLK TAITDQLQFT NNKIQQQCGH  300
VMNSDNKTDS LRFGGSDSGR DLCSAGQRHG FPDHHAPVWR PHRGLPERAV AVLRAWLFDH  360
FLHPYPTDTD KLVLAKQTGL SRNQVSNWFI NARVRVWKPM VEEIHMLETR QSQRSSSSSW  420
RDEHSTTVFP DNNNDNPSSS SAQQRANNNS SPARRVRNHD VHGTNNNNNN NFMNAGNGGS  480
GGGAVSFSYG IASSNVPGMS NSTNGGVSLT LGLHHQIGLS EPFPMTTAQR LGLDGGSSGG  540
GGGGYDGQNR QFGRDFIGGS NHQFLHDFVG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5bng_A3e-16345403159Homeobox protein Meis2
5bng_B3e-16345403159Homeobox protein Meis2
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during late heart stage embryo in the SAM region between the two developing cotyledons. Expression is initially down-regulated in incipient floral primordia but a strong expression is subsequently detected in the central region of young floral primordia and the inner whorl of developing flowers. In fruit, is expressed in the replum of developing ovaries. {ECO:0000269|PubMed:12874117}.
UniprotTISSUE SPECIFICITY: Predominantly expressed in stems, inflorescences and flowers. {ECO:0000269|PubMed:12874117, ECO:0000269|PubMed:12897247, ECO:0000269|PubMed:13678595, ECO:0000269|PubMed:15019989}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that is involved in the preservation of the spiral phyllotactic arrangement leading to a regular pattern of organ initiation. Required for maintenance of stem cell fate in the shoot apical meristem, and is essential for specifying floral primordia and establishing early internode patterning events during inflorescence development. Acts as transcription repressor of AG expression in floral and inflorescence meristems. Is also responsive of the nuclear import of SHOOT MERISTEMLESS (STM). In the fruit, plays a central role in patterning by negatively regulating SHP expression in order to prevent replum cells from adopting a valve margin cell fate. {ECO:0000269|PubMed:12874117, ECO:0000269|PubMed:12897247, ECO:0000269|PubMed:13678595, ECO:0000269|PubMed:15019989, ECO:0000269|PubMed:15120075, ECO:0000269|PubMed:15155890, ECO:0000269|PubMed:16741748}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009130676.1
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_009130676.10.0PREDICTED: BEL1-like homeodomain protein 9
SwissprotQ9LZM80.0BLH9_ARATH; BEL1-like homeodomain protein 9
TrEMBLM4CNB50.0M4CNB5_BRARP; Uncharacterized protein
STRINGBra005703.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM56882746
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G02030.10.0TALE family protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Pabón-Mora N,Wong GK,Ambrose BA
    Evolution of fruit development genes in flowering plants.
    Front Plant Sci, 2014. 5: p. 300
    [PMID:25018763]
  3. Khan M, et al.
    Repression of Lateral Organ Boundary Genes by PENNYWISE and POUND-FOOLISH Is Essential for Meristem Maintenance and Flowering in Arabidopsis.
    Plant Physiol., 2015. 169(3): p. 2166-86
    [PMID:26417006]
  4. Andrés F, et al.
    Floral Induction in Arabidopsis by FLOWERING LOCUS T Requires Direct Repression of BLADE-ON-PETIOLE Genes by the Homeodomain Protein PENNYWISE.
    Plant Physiol., 2015. 169(3): p. 2187-99
    [PMID:26417007]
  5. Bencivenga S,Serrano-Mislata A,Bush M,Fox S,Sablowski R
    Control of Oriented Tissue Growth through Repression of Organ Boundary Genes Promotes Stem Morphogenesis.
    Dev. Cell, 2016. 39(2): p. 198-208
    [PMID:27666746]
  6. Sehra B,Franks RG
    Redundant CArG Box Cis-motif Activity Mediates SHATTERPROOF2 Transcriptional Regulation during Arabidopsis thaliana Gynoecium Development.
    Front Plant Sci, 2017. 8: p. 1712
    [PMID:29085379]
  7. Simonini S,Stephenson P,Østergaard L
    A molecular framework controlling style morphology in Brassicaceae.
    Development, 2018.
    [PMID:29440299]