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_A03G2004
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: 209aa    MW: 24187.8 Da    PI: 10.0237
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gh_A03G2004genomeNAU-NBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF95.42.5e-30959151
                 S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
       SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                 krien   rqvtfskRrng+lKKA+ELSvLCdaeva+iifs++gklye+ss
  Gh_A03G2004  9 KRIENAASRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSS 59
                 79***********************************************96 PP
2K-box70.84.1e-24861731097
        K-box  10 eeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                   ++++++ +++++ + k+ie L+ ++ +llG++Le++sl+eL+qLe++Le+sl++iR++Kn l+++qie+l++ ek+l+een +Lr+ 
  Gh_A03G2004  86 VDQNTQNVKEDAQSMAKKIELLEISKQKLLGKGLEPCSLNELNQLETNLEQSLSRIRERKNLLFRQQIEKLKQEEKRLKEENAKLRQT 173
                  6899**********************************************************************************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.567161IPR002100Transcription factor, MADS-box
SMARTSM004321.0E-40160IPR002100Transcription factor, MADS-box
CDDcd002659.59E-42371No hitNo description
PRINTSPR004041.1E-30323IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.09E-32373IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003197.9E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-302338IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-303859IPR002100Transcription factor, MADS-box
PfamPF014866.4E-2388174IPR002487Transcription factor, K-box
PROSITE profilePS5129713.91890180IPR002487Transcription 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: 209 aa     Download sequence    Send to blast
MVRGKTQMKR IENAASRQVT FSKRRNGLLK KAFELSVLCD AEVALIIFSP RGKLYEFSSS  60
SMSKTIERYE KREKDNIGIN NKLAAVDQNT QNVKEDAQSM AKKIELLEIS KQKLLGKGLE  120
PCSLNELNQL ETNLEQSLSR IRERKNLLFR QQIEKLKQEE KRLKEENAKL RQTCGMNPSP  180
WSTSTEEETM EVETELFIGP PERRRIQNP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A8e-20169169MEF2C
5f28_B8e-20169169MEF2C
5f28_C8e-20169169MEF2C
5f28_D8e-20169169MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Ghi.243941e-171ovule
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016755604.11e-149PREDICTED: agamous-like MADS-box protein AGL19 isoform X1
RefseqXP_016755605.11e-149PREDICTED: agamous-like MADS-box protein AGL19 isoform X2
RefseqXP_016755606.11e-149PREDICTED: agamous-like MADS-box protein AGL19 isoform X2
RefseqXP_016755607.11e-149PREDICTED: agamous-like MADS-box protein AGL19 isoform X2
RefseqXP_017640737.11e-149PREDICTED: agamous-like MADS-box protein AGL19 isoform X3
SwissprotO827433e-76AGL19_ARATH; Agamous-like MADS-box protein AGL19
TrEMBLA0A1U8PWS11e-148A0A1U8PWS1_GOSHI; agamous-like MADS-box protein AGL19 isoform X2
TrEMBLA0A1U8PZ901e-147A0A1U8PZ90_GOSHI; agamous-like MADS-box protein AGL19 isoform X1
STRINGGorai.003G163900.11e-129(Gossypium raimondii)
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
AT4G22950.12e-55AGAMOUS-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]