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 Gorai.012G108300.1
Common NameB456_012G108300, LOC105780532
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family TALE
Protein Properties Length: 644aa    MW: 70020.2 Da    PI: 7.3493
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.012G108300.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox28.92e-094444811954
                         HHH..SSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHH CS
            Homeobox  19 Fek..nrypsaeereeLAkklgLterqVkvWFqNrRak 54 
                         Fe   ++yp+ +++  LAk++gL+ +qV++WF N R +
  Gorai.012G108300.1 444 FEHflHPYPTDTDKLMLAKQTGLSRSQVSNWFINARVR 481
                         554459******************************88 PP
2BELL107.11.1e-34313381472
                BELL   4 elqkkkakLlslleeVdkrYkqyveqlqtvissFeavaglgsakpYtslAlkaiSrhFrcLkdaiaeqi 72 
                         e ++kk++L+s+l+eV++ Ykqy++q+q+v++sFe vaglg+a+pY++lAlka+S+hFrcLk+ai++q+
  Gorai.012G108300.1 313 ESRRKKSRLISMLDEVYRSYKQYYQQIQAVVASFEYVAGLGNAAPYANLALKAMSKHFRCLKNAITDQL 381
                         7899**************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005744.2E-53248379IPR006563POX domain
PfamPF075262.8E-39253378IPR006563POX domain
PROSITE profilePS5007112.098422485IPR001356Homeobox domain
SMARTSM003893.4E-10425489IPR001356Homeobox domain
CDDcd000864.34E-13425486No hitNo description
SuperFamilySSF466895.56E-17427491IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.1E-27428489IPR009057Homeodomain-like
PfamPF059201.2E-18442481IPR008422Homeobox KN domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010051Biological Processxylem and phloem pattern formation
GO:0010076Biological Processmaintenance of floral meristem identity
GO:0010077Biological Processmaintenance of inflorescence meristem identity
GO:0010089Biological Processxylem development
GO:0010154Biological Processfruit development
GO:0010223Biological Processsecondary shoot formation
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048457Biological Processfloral whorl morphogenesis
GO:0048645Biological Processorgan formation
GO:0080006Biological Processinternode patterning
GO:0005634Cellular Componentnucleus
GO:0005829Cellular Componentcytosol
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 644 aa     Download sequence    Send to blast
MAEGFEPYHV PQQSRRDKLR IVAQNHSACV ESTAVTLPGC SGLLPLYDAS LLSSDLLTCA  60
ANASASHDFH HHQANQLSAS ASGKNSSLVC GVKEGVNSMG FVGGVVNGSS SASHHHPYLD  120
GQSSLPVNPS SIHDMNNSPF LYTPQNLQTI RDFDQSYNSG GEVVVYKPEP LSLNHESSAT  180
AQALSLSLSS HNTHQNNLPL ELNLQRYGST IYSDKVTDSG YVVPSIIRGS ASTSNEVSRG  240
SLPLGPFTGY ASILKGSRFL RPAQMLLEEL CDVGRGLYAE KMTPDSSLMD PSLQNLSGTG  300
IIDDSLSGGD GGESRRKKSR LISMLDEVYR SYKQYYQQIQ AVVASFEYVA GLGNAAPYAN  360
LALKAMSKHF RCLKNAITDQ LQFINKPHGR TSPGKDEGPM FGNTERSLYN LAVHNAGFHE  420
HQPVWRPQRG LPERAVTVLR AWLFEHFLHP YPTDTDKLML AKQTGLSRSQ VSNWFINARV  480
RLWKPMVEEI HMLEQAQKNS QKEARNPNKS SDHLSSANSI APENPSTSFQ RAQDTPSKRT  540
RSEPLSDIPL GSEPHNLTYN SLSSHPHVGM GVSMAGGSNG VSLTLGLHQN NGISLSEPFS  600
FNAAQRFGLG LSSEGYVIGG YEAQNRHFGR DVMGGQLLHD FVG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4xrm_A2e-16431489563Homeobox protein Meis2
4xrm_B2e-16431489563Homeobox protein Meis2
4xrs_A2e-16431488158Homeobox protein Meis1
4xrs_B2e-16431488158Homeobox protein Meis1
5bng_A2e-16431489159Homeobox protein Meis2
5bng_B2e-16431489159Homeobox 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}.
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_012460372.10.0PREDICTED: BEL1-like homeodomain protein 9
SwissprotQ9LZM81e-121BLH9_ARATH; BEL1-like homeodomain protein 9
TrEMBLA0A0D2S1110.0A0A0D2S111_GOSRA; Uncharacterized protein
STRINGGorai.012G108300.10.0(Gossypium raimondii)
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
AT5G02030.11e-120TALE family protein
Publications ? help Back to Top
  1. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]
  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]
  3. Pabón-Mora N,Wong GK,Ambrose BA
    Evolution of fruit development genes in flowering plants.
    Front Plant Sci, 2014. 5: p. 300
    [PMID:25018763]
  4. 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]
  5. 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]
  6. 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]
  7. 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]
  8. Simonini S,Stephenson P,Østergaard L
    A molecular framework controlling style morphology in Brassicaceae.
    Development, 2018.
    [PMID:29440299]