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 Gh_A12G2048
Organism
Gossypium hirsutum
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: 240aa    MW: 27797.8 Da    PI: 9.1068
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gh_A12G2048genomeNAU-NBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF95.13.2e-304090151
                 S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
       SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                 krien   rqvtfskRrng+lKKA+ELSvLCdaeva+iifs++gklye+ss
  Gh_A12G2048 40 KRIENAASRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSS 90
                 79***********************************************96 PP
2K-box76.38.1e-261152011197
        K-box  11 eakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                  e  +   ++++ +L k+ie+L+ ++R+llG +Le++s+ +L  Le+qLe+sl++iR++Kn++++eqie+l++ e++l een +Lr++
  Gh_A12G2048 115 EDMQDDVKEDAHRLAKKIESLEDSKRKLLGHGLEPCSIDDLLLLEKQLERSLSRIRARKNQVFTEQIEKLKEEERRLGEENANLREE 201
                  4555678999***************************************************************************87 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.2E-393291IPR002100Transcription factor, MADS-box
PROSITE profilePS5006630.9083292IPR002100Transcription factor, MADS-box
PROSITE patternPS0035003488IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.31E-3134103IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-293454IPR002100Transcription factor, MADS-box
CDDcd002657.01E-4134108No hitNo description
PfamPF003191.0E-264188IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-295469IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-296990IPR002100Transcription factor, MADS-box
PfamPF014862.1E-26113202IPR002487Transcription factor, K-box
PROSITE profilePS5129715.276118208IPR002487Transcription 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: 240 aa     Download sequence    Send to blast
MGCLDTCSEA DGPQPVGPRE RVVWRKLKSE KMVRRRTQLK RIENAASRQV TFSKRRNGLL  60
KKAFELSVLC DAEVALIIFS PRGKLYEFSS SSTNKTIERY QKRQKDIHGI SSKGEDMQDD  120
VKEDAHRLAK KIESLEDSKR KLLGHGLEPC SIDDLLLLEK QLERSLSRIR ARKNQVFTEQ  180
IEKLKEEERR LGEENANLRE ECGMRPREST STRQSDDERN MEVETELCIG PPERRCILKP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-1832100169MEF2C
5f28_B1e-1832100169MEF2C
5f28_C1e-1832100169MEF2C
5f28_D1e-1832100169MEF2C
6byy_A1e-1832100169MEF2 CHIMERA
6byy_B1e-1832100169MEF2 CHIMERA
6byy_C1e-1832100169MEF2 CHIMERA
6byy_D1e-1832100169MEF2 CHIMERA
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Mostly expressed in the outer layers of the root meristem (lateral root cap and epidermis) and in the central cylinder cells of mature roots. Also present in rosette leaves and seedlings and, to a lesser extent, in cauline leaves and flowers. Enriched in apices including the shoot apical meristem and developing leaf primordia. {ECO:0000269|PubMed:11115127, ECO:0000269|PubMed:12837945, ECO:0000269|PubMed:12949148, ECO:0000269|PubMed:16778081}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that promotes flowering, especially in response to vernalization by short periods of cold, in an FLC-inpedendent manner. {ECO:0000269|PubMed:16778081}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Maintained at very low levels by the polycomb-group (PcG) proteins MSI1, CLF, and EMF2 via histone methylation (H3K27me3). Derepressed upon cold treatment (vernalization). {ECO:0000269|PubMed:16778081}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHM2364310.0HM236431.1 Gossypium hirsutum MADS14 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016724602.11e-151PREDICTED: agamous-like MADS-box protein AGL19 isoform X1
SwissprotO827432e-73AGL19_ARATH; Agamous-like MADS-box protein AGL19
TrEMBLA0A1U8MCM41e-150A0A1U8MCM4_GOSHI; agamous-like MADS-box protein AGL19 isoform X1
STRINGEOY245831e-105(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM7828413
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G22950.13e-57AGAMOUS-like 19
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Suter L,Rüegg M,Zemp N,Hennig L,Widmer A
    Gene regulatory variation mediates flowering responses to vernalization along an altitudinal gradient in Arabidopsis.
    Plant Physiol., 2014. 166(4): p. 1928-42
    [PMID:25339407]