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.008G017200.1
Common NameB456_008G017200, LOC105762742
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: 218aa    MW: 24402.1 Da    PI: 9.9072
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.008G017200.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF854.6e-27959151
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                        k+i n+  rqvtfskRr g++KKA+ELS+LCdae+a+i+fs tgkl+ yss
  Gorai.008G017200.1  9 KKIANTAARQVTFSKRRRGLFKKAHELSTLCDAEIALIVFSATGKLFKYSS 59
                        6899*********************************************96 PP
2K-box49.32.1e-17901721799
               K-box  17 lqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                          +  ++ L kei +  +e+R+l GedL+ L+l +L+qLe+ ++ +l++i ++K+e +l++i++l kk  el+een  L++++e
  Gorai.008G017200.1  90 ESATHSVLSKEIAEKTQELRQLRGEDLHGLNLDQLKQLEKLVQGGLSQISETKDERFLKEISTLEKKGAELKEENLILKQQVE 172
                         5556677888888888999*************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004327.6E-38160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006628.903161IPR002100Transcription factor, MADS-box
SuperFamilySSF554556.67E-29270IPR002100Transcription factor, MADS-box
PRINTSPR004044.2E-26323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
CDDcd002654.44E-38368No hitNo description
PfamPF003195.1E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004044.2E-262338IPR002100Transcription factor, MADS-box
PRINTSPR004044.2E-263859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129712.21687177IPR002487Transcription factor, K-box
PfamPF014861.2E-1392171IPR002487Transcription factor, K-box
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
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 218 aa     Download sequence    Send to blast
MTRQRIEIKK IANTAARQVT FSKRRRGLFK KAHELSTLCD AEIALIVFSA TGKLFKYSST  60
SMRQVIERRR LQSERIDGLE GAPSVELQLE SATHSVLSKE IAEKTQELRQ LRGEDLHGLN  120
LDQLKQLEKL VQGGLSQISE TKDERFLKEI STLEKKGAEL KEENLILKQQ VEKLPLVVKG  180
QPSEPFPHLH KSGDPPPPPQ GYNTSDISLT LGLPFPS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A6e-21166166MEF2C
5f28_B6e-21166166MEF2C
5f28_C6e-21166166MEF2C
5f28_D6e-21166166MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Widely expressed with highest levels in shoot tips and axillary buds. Also found in fully developed pedicels and flowers.
Functional Description ? help Back to Top
Source Description
UniProtPutative transcription factor that coordinates gene expression underlying the differentiation of the pedicel abscission zone. May also be involved in the maintenance of the inflorescence meristem state.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC1556580.0KC155658.1 Gossypium hirsutum MADS box protein MADS63 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012436069.11e-155PREDICTED: MADS-box protein JOINTLESS-like isoform X3
RefseqXP_012436070.11e-155PREDICTED: MADS-box protein JOINTLESS-like isoform X3
RefseqXP_012436071.11e-155PREDICTED: MADS-box protein JOINTLESS-like isoform X3
RefseqXP_012436072.11e-155PREDICTED: MADS-box protein JOINTLESS-like isoform X3
SwissprotQ9FUY62e-67JOIN_SOLLC; MADS-box protein JOINTLESS
TrEMBLA0A0D2TV961e-154A0A0D2TV96_GOSRA; Uncharacterized protein
STRINGGorai.008G017200.11e-155(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM2828333
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22540.16e-69MIKC_MADS 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. Nakano T,Kato H,Shima Y,Ito Y
    Apple SVP Family MADS-Box Proteins and the Tomato Pedicel Abscission Zone Regulator JOINTLESS have Similar Molecular Activities.
    Plant Cell Physiol., 2015. 56(6): p. 1097-106
    [PMID:25746985]