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.013G135200.1
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 MIKC_MADS
Protein Properties Length: 198aa    MW: 22654.6 Da    PI: 7.5444
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.013G135200.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF82.62.5e-26958150
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                        krien   rqvtf+kRr+g+lKKA+ELSvLCdae+ v+ifs +gklye +
  Gorai.013G135200.1  9 KRIENPVHRQVTFCKRRAGLLKKAKELSVLCDAEIGVVIFSAHGKLYELA 58
                        79*********************************************965 PP
2K-box58.33.2e-208917217100
               K-box  17 lqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                          ++e++ Lk+eie Lq+  R + G + e +sl+eL  Le++Le  +++iRs+K ++++++i+ l++ke  +  +nk+L++ +ee
  Gorai.013G135200.1  89 AKKEIEMLKQEIEILQKGPRYMFGGGCEYMSLNELLVLEKHLEIWINHIRSTKIDIMFQEIQMLRNKEGIMTAANKCLHETIEE 172
                         579*****************************************************************************9986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006630.249161IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.75E-28175IPR002100Transcription factor, MADS-box
SMARTSM004329.0E-36160IPR002100Transcription factor, MADS-box
CDDcd002651.12E-41276No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004044.9E-27323IPR002100Transcription factor, MADS-box
PfamPF003197.7E-241056IPR002100Transcription factor, MADS-box
PRINTSPR004044.9E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004044.9E-273859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129710.05786176IPR002487Transcription factor, K-box
PfamPF014863.9E-2089170IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0048364Biological Processroot development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 198 aa     Download sequence    Send to blast
MGRGRVQMKR IENPVHRQVT FCKRRAGLLK KAKELSVLCD AEIGVVIFSA HGKLYELATK  60
GTMQELIERY GKYTGGPPAD EPMVEPMDAK KEIEMLKQEI EILQKGPRYM FGGGCEYMSL  120
NELLVLEKHL EIWINHIRST KIDIMFQEIQ MLRNKEGIMT AANKCLHETI EENISYTDFT  180
TMTTNMMHPL TIANNIF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A5e-17190191MEF2C
5f28_B5e-17190191MEF2C
5f28_C5e-17190191MEF2C
5f28_D5e-17190191MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During embryo development, expressed in a punctate pattern from the globular stage to the torpedo stage. {ECO:0000269|PubMed:11855641}.
UniprotTISSUE SPECIFICITY: Preferentially expressed in roots (PubMed:7549482). In root meristem, expressed in external cells of columella, lateral root cap and atrichoblasts. In mature root, expressed in the central cylinder (PubMed:11855641). Expressed in leaf vasculature, young floral meristems and nectaries (PubMed:18203871). {ECO:0000269|PubMed:11855641, ECO:0000269|PubMed:18203871, ECO:0000269|PubMed:7549482}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription activator that regulates root development by controlling cell proliferation in root meristem. May mediate responses to auxin in the root. May act as promoter of the flowering transition through up-regulation of SOC, FT and LFY. {ECO:0000269|PubMed:18203871}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin in root phloem. {ECO:0000269|PubMed:18203871}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ5189144e-63DQ518914.1 Populus tomentosa MADS box transcription factor (MADS2) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012465887.11e-146PREDICTED: agamous-like MADS-box protein AGL12 isoform X2
SwissprotQ388411e-74AGL12_ARATH; Agamous-like MADS-box protein AGL12
TrEMBLA0A2P5YFF01e-142A0A2P5YFF0_GOSBA; Uncharacterized protein
STRINGGorai.013G135200.11e-145(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM70522641
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71692.16e-77AGAMOUS-like 12
Publications ? help Back to Top
  1. Zimmermann P,Hirsch-Hoffmann M,Hennig L,Gruissem W
    GENEVESTIGATOR. Arabidopsis microarray database and analysis toolbox.
    Plant Physiol., 2004. 136(1): p. 2621-32
    [PMID:15375207]
  2. Pacheco-Escobedo MA, et al.
    Longitudinal zonation pattern in Arabidopsis root tip defined by a multiple structural change algorithm.
    Ann. Bot., 2018.
    [PMID:27358290]
  3. García-Cruz KV, et al.
    The MADS-box XAANTAL1 increases proliferation at the Arabidopsis root stem-cell niche and participates in transition to differentiation by regulating cell-cycle components.
    Ann. Bot., 2018.
    [PMID:27474508]