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.002G255800.1
Common NameB456_002G255800, LOC105786484
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: 551aa    MW: 60257.1 Da    PI: 7.5541
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.002G255800.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox28.82.1e-093764131954
                         HHH..SSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHH CS
            Homeobox  19 Fek..nrypsaeereeLAkklgLterqVkvWFqNrRak 54 
                         Fe   ++yp+ +++  LAk++gL+ +qV++WF N R +
  Gorai.002G255800.1 376 FEHflHPYPTDTDKLMLAKQTGLSRNQVSNWFINARVR 413
                         554459******************************88 PP
2BELL100.41.4e-32246313572
                BELL   5 lqkkkakLlslleeVdkrYkqyveqlqtvissFeavaglgsakpYtslAlkaiSrhFrcLkdaiaeqi 72 
                          q+kk+ L+s+l+eV+krYkqy++q+q v++sFe+vaglg+a+p+++lA+ka+S+hFr Lk+ai+eq+
  Gorai.002G255800.1 246 GQRKKSTLISILDEVYKRYKQYYQQMQSVVASFECVAGLGNAAPFANLAMKAMSKHFRYLKNAITEQL 313
                         599***************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005744.4E-51182311IPR006563POX domain
PfamPF075262.8E-36187310IPR006563POX domain
PROSITE profilePS5007112.098354417IPR001356Homeobox domain
SMARTSM003897.3E-10357421IPR001356Homeobox domain
CDDcd000869.85E-13357418No hitNo description
SuperFamilySSF466896.84E-17359423IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.4E-27360421IPR009057Homeodomain-like
PfamPF059201.3E-18374413IPR008422Homeobox KN domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 551 aa     Download sequence    Send to blast
MAEGFEPYHV PQQSRRDKLR IMAQNEPTTG VSLSGCSGLL PFYDPSFLSS DLLTCAAAAA  60
GSHEYHHPPP SGTKDGVNFT GFVGGIFNSS PSLDHLNPSS IHDMNNNNNN QFLYTPQNLS  120
YDNNNGGGGA GEVVVYKPEP LSLSLSSHYT HQNSSIYTDM VPAIFSGANG STSNSVPLGP  180
FTGYASILKG SRFLRPAQQL LEELCDVGKG IYTEKASLME LPPLQNSHTN PLDGGDSGGS  240
GGGGDGQRKK STLISILDEV YKRYKQYYQQ MQSVVASFEC VAGLGNAAPF ANLAMKAMSK  300
HFRYLKNAIT EQLQFTNKAH AQISPGKNEG PRFGNGDGSF YNRAVQNSRF LQNQPVWRPQ  360
RGLPERAVTV LRAWLFEHFL HPYPTDTDKL MLAKQTGLSR NQVSNWFINA RVRLWKPMVE  420
EIHMLETRQK DERNANKSGD ENPSTSTQRV EENTPSKRTR NELPNVPVGN EQPNMSTSYN  480
SFSTHPHGSS VSLTLGLHQN NSIGLSESFP INAAQRFGLG LEVNSEGYVI GGRHFGRDVV  540
GGQLLHDFVG *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4xrm_A4e-16363421563Homeobox protein Meis2
4xrm_B4e-16363421563Homeobox protein Meis2
4xrs_A4e-16363420158Homeobox protein Meis1
4xrs_B4e-16363420158Homeobox protein Meis1
5bng_A4e-16363421159Homeobox protein Meis2
5bng_B4e-16363421159Homeobox 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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHQ5275021e-142HQ527502.1 Gossypium herbaceum clone NBRI_B_5548 simple sequence repeat marker, mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012468393.10.0PREDICTED: BEL1-like homeodomain protein 9
SwissprotQ9LZM81e-131BLH9_ARATH; BEL1-like homeodomain protein 9
TrEMBLA0A0D2QBZ60.0A0A0D2QBZ6_GOSRA; Uncharacterized protein
STRINGGorai.002G255800.10.0(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]