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.N017200.1
Common NameB456_N017200, LOC105784902
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: 268aa    MW: 30849.1 Da    PI: 9.8716
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.N017200.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.11.8e-314594150
                     S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
           SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                     krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fss+g+lyey+
  Gorai.N017200.1 45 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYA 94
                     79***********************************************8 PP
2K-box114.41.1e-371122084100
            K-box   4 ssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                      s++ s++e +a+ +qqe++kL+++i+nLq+ +Rh+lGe+++ L +keL++Le++Lek++++iRskKnell+++ie++qk+e +l+++n+ Lr+k
  Gorai.N017200.1 112 SNTGSVAEVNAQFYQQEADKLRNQIRNLQNANRHMLGESIGGLPMKELKSLESRLEKGISRIRSKKNELLFAEIEYMQKREIDLHNNNQLLRAK 205
                      3344499*************************************************************************************** PP

            K-box  98 lee 100
                      ++e
  Gorai.N017200.1 206 IAE 208
                      986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006634.1323797IPR002100Transcription factor, MADS-box
SMARTSM004321.1E-423796IPR002100Transcription factor, MADS-box
SuperFamilySSF554554.71E-3438126IPR002100Transcription factor, MADS-box
CDDcd002652.65E-4638112No hitNo description
PRINTSPR004045.4E-333959IPR002100Transcription factor, MADS-box
PROSITE patternPS0035003993IPR002100Transcription factor, MADS-box
PfamPF003191.0E-264693IPR002100Transcription factor, MADS-box
PRINTSPR004045.4E-335974IPR002100Transcription factor, MADS-box
PRINTSPR004045.4E-337495IPR002100Transcription factor, MADS-box
PfamPF014861.1E-27121206IPR002487Transcription factor, K-box
PROSITE profilePS5129714.999122212IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048366Biological Processleaf development
GO:0048440Biological Processcarpel development
GO:0048443Biological Processstamen development
GO:0048497Biological Processmaintenance of floral organ identity
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: 268 aa     Download sequence    Send to blast
MILLPSSWFF FWFFGLFQLG SMVYPNESLE NSPQKKMGRG KIEIKRIENT TNRQVTFCKR  60
RNGLLKKAYE LSVLCDAEVA LIVFSSRGRL YEYANNSVKA TIERYKKASD SSNTGSVAEV  120
NAQFYQQEAD KLRNQIRNLQ NANRHMLGES IGGLPMKELK SLESRLEKGI SRIRSKKNEL  180
LFAEIEYMQK REIDLHNNNQ LLRAKIAENE RKQQSMNLMP GGSSANFEAL HSQPYDSRNY  240
FQVDALQPAT NYYNPQQQQD QIALQLV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P4e-2137110174Myocyte-specific enhancer factor 2B
1tqe_Q4e-2137110174Myocyte-specific enhancer factor 2B
1tqe_R4e-2137110174Myocyte-specific enhancer factor 2B
1tqe_S4e-2137110174Myocyte-specific enhancer factor 2B
6c9l_A4e-2137110174Myocyte-specific enhancer factor 2B
6c9l_B4e-2137110174Myocyte-specific enhancer factor 2B
6c9l_C4e-2137110174Myocyte-specific enhancer factor 2B
6c9l_D4e-2137110174Myocyte-specific enhancer factor 2B
6c9l_E4e-2137110174Myocyte-specific enhancer factor 2B
6c9l_F4e-2137110174Myocyte-specific enhancer factor 2B
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gra.15510.0flower| flowering
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Detected early in the floral meristem but mostly expressed in stamen and carpel primordia. {ECO:0000269|PubMed:1675158}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the control of organ identity during the early development of flowers. Is required for normal development of stamens and carpels in the wild-type flower. Plays a role in maintaining the determinacy of the floral meristem. Acts as C class cadastral protein by repressing the A class floral homeotic genes like APETALA1. Forms a heterodimer via the K-box domain with either SEPALATTA1/AGL2, SEPALATTA2/AGL4, SEPALLATA3/AGL9 or AGL6 that could be involved in genes regulation during floral meristem development. Controls AHL21/GIK, a multifunctional chromatin modifier in reproductive organ patterning and differentiation (PubMed:19956801). Induces microsporogenesis through the activation of SPL/NZZ (PubMed:15254538). {ECO:0000269|PubMed:15254538, ECO:0000269|PubMed:19956801}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00609ChIP-seqTransfer from AT4G18960Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Negatively regulated by the A class floral homeotic protein APETALA2 and by other repressors like LEUNIG, SEUSS, SAP or CURLY LEAF. Positively regulated by both LEAFY and APETALA1. Repressed by silencing mediated by polycomb group (PcG) protein complex containing EMF1 and EMF2. Up-regulated by HUA2. {ECO:0000269|PubMed:10198637, ECO:0000269|PubMed:11058164, ECO:0000269|PubMed:1675158, ECO:0000269|PubMed:17794879, ECO:0000269|PubMed:18281509, ECO:0000269|PubMed:19783648, ECO:0000269|PubMed:9783581}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0831730.0AY083173.1 Gossypium hirsutum AG-like protein (MADS-3) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012466273.10.0PREDICTED: floral homeotic protein AGAMOUS-like isoform X1
RefseqXP_012466274.10.0PREDICTED: floral homeotic protein AGAMOUS-like isoform X2
SwissprotP178391e-125AG_ARATH; Floral homeotic protein AGAMOUS
TrEMBLA0A0D2VK160.0A0A0D2VK16_GOSRA; Uncharacterized protein
STRINGGorai.N017200.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM61812237
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G18960.11e-125MIKC_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. Huang Z, et al.
    APETALA2 antagonizes the transcriptional activity of AGAMOUS in regulating floral stem cells in Arabidopsis thaliana.
    New Phytol., 2017. 215(3): p. 1197-1209
    [PMID:27604611]
  3. Rong XF, et al.
    Type-B ARRs Control Carpel Regeneration Through Mediating AGAMOUS Expression in Arabidopsis.
    Plant Cell Physiol., 2018. 59(4): p. 756-764
    [PMID:29186581]
  4. Uemura A, et al.
    Regulation of floral meristem activity through the interaction of AGAMOUS, SUPERMAN, and CLAVATA3 in Arabidopsis.
    Plant Reprod, 2018. 31(1): p. 89-105
    [PMID:29218596]