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 Tp57577_TGAC_v2_mRNA2916
Organism
Trifolium pratense
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Trifolium
Family MIKC_MADS
Protein Properties Length: 212aa    MW: 24227.6 Da    PI: 8.2077
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp57577_TGAC_v2_mRNA2916genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF83.71.1e-26959151
                              S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                    SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                              k+i+n s rqvtfskRr+g++KKA+ELS+LCda++a+++fs tgkl+ey+s
  Tp57577_TGAC_v2_mRNA2916  9 KKIDNISSRQVTFSKRRKGLFKKAQELSTLCDADIALMVFSATGKLFEYAS 59
                              68***********************************************86 PP
2K-box55.62.3e-19901701595
                     K-box  15 eslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLr 95 
                                +++ +++ L k++e   re Rhl GedL++L+++eLq+Le  L++sl+++ + K+e++++ i++l++ke +l een++L+
  Tp57577_TGAC_v2_mRNA2916  90 VESDSNYNTLCKKLEDKSREVRHLNGEDLQELTVQELQKLEAILQRSLSSVSKIKDEMFMQDINTLKRKEVKLIEENQRLK 170
                               456778899999999999************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006629.38161IPR002100Transcription factor, MADS-box
SMARTSM004327.0E-39160IPR002100Transcription factor, MADS-box
SuperFamilySSF554553.53E-30288IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-26323IPR002100Transcription factor, MADS-box
CDDcd002652.06E-36378No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003197.3E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-262338IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-263859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129712.3689184IPR002487Transcription factor, K-box
PfamPF014869.5E-1791170IPR002487Transcription 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: 212 aa     Download sequence    Send to blast
MTRKKIEIKK IDNISSRQVT FSKRRKGLFK KAQELSTLCD ADIALMVFSA TGKLFEYAST  60
SSIEQVIERR NGYSANHRFM DHPSTDQLQV ESDSNYNTLC KKLEDKSREV RHLNGEDLQE  120
LTVQELQKLE AILQRSLSSV SKIKDEMFMQ DINTLKRKEV KLIEENQRLK YVVPDLISGH  180
MQQSLESVIS GSSSYFDDSD TSLNLGLQLL K*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A9e-19177176MEF2C
5f28_B9e-19177176MEF2C
5f28_C9e-19177176MEF2C
5f28_D9e-19177176MEF2C
6byy_A1e-18177176MEF2 CHIMERA
6byy_B1e-18177176MEF2 CHIMERA
6byy_C1e-18177176MEF2 CHIMERA
6byy_D1e-18177176MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that mediates floral transition in response to vernalization. Promotes inflorescence fate in apical meristems. Acts in a dosage-dependent manner. Probably involved in the transduction of RLK-mediated signaling (e.g. IMK3 pathway). Together with AP1 and SVP, controls the identity of the floral meristem and regulates expression of class B, C and E genes. When associated with SOC1, mediates effect of gibberellins on flowering under short-day conditions, and regulates the expression of LEAFY (LFY), which links floral induction and floral development. Confers inflorescence characteristics to floral primordia and early flowering. {ECO:0000269|PubMed:12451184, ECO:0000269|PubMed:12609028, ECO:0000269|PubMed:12881501, ECO:0000269|PubMed:14716314, ECO:0000269|PubMed:16679456, ECO:0000269|PubMed:18339670, ECO:0000269|PubMed:18466303, ECO:0000269|PubMed:18694458, ECO:0000269|PubMed:19656343}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapTp57577_TGAC_v2_mRNA2916
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by vernalization in a FLC-independent manner. Repressed by the floral homeotic genes AP1, LFY and SEP3 in emerging floral meristems to establish a floral identity and prevent inflorescence fate. Up-regulated at the shoot apex by SOC1. {ECO:0000269|PubMed:12609028, ECO:0000269|PubMed:14716314, ECO:0000269|PubMed:17428825, ECO:0000269|PubMed:18339670, ECO:0000269|PubMed:18694458}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0518640.0BT051864.1 Medicago truncatula clone MTYF5_F6_F7_F81G-B-12 unknown mRNA.
GenBankBT1494770.0BT149477.1 Medicago truncatula clone JCVI-FLMt-11F12 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024636942.11e-118MADS-box protein AGL24 isoform X2
RefseqXP_024636943.11e-118MADS-box protein AGL24 isoform X2
SwissprotO827941e-55AGL24_ARATH; MADS-box protein AGL24
TrEMBLG7JV761e-116G7JV76_MEDTR; MADS-box transcription factor
STRINGAES906241e-116(Medicago truncatula)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF89033106
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G24540.14e-58AGAMOUS-like 24
Publications ? help Back to Top
  1. Ramamoorthy R,Phua EE,Lim SH,Tan HT,Kumar PP
    Identification and characterization of RcMADS1, an AGL24 ortholog from the holoparasitic plant Rafflesia cantleyi Solms-Laubach (Rafflesiaceae).
    PLoS ONE, 2013. 8(6): p. e67243
    [PMID:23840638]
  2. Lei HJ, et al.
    Identification and characterization of FaSOC1, a homolog of SUPPRESSOR OF OVEREXPRESSION OF CONSTANS1 from strawberry.
    Gene, 2013. 531(2): p. 158-67
    [PMID:24055423]
  3. Wells CE,Vendramin E,Jimenez Tarodo S,Verde I,Bielenberg DG
    A genome-wide analysis of MADS-box genes in peach [Prunus persica (L.) Batsch].
    BMC Plant Biol., 2015. 15: p. 41
    [PMID:25848674]
  4. Sacharowski SP, et al.
    SWP73 Subunits of Arabidopsis SWI/SNF Chromatin Remodeling Complexes Play Distinct Roles in Leaf and Flower Development.
    Plant Cell, 2015. 27(7): p. 1889-906
    [PMID:26106148]
  5. Sun LM,Zhang JZ,Hu CG
    Characterization and Expression Analysis of PtAGL24, a SHORT VEGETATIVE PHASE/AGAMOUS-LIKE 24 (SVP/AGL24)-Type MADS-Box Gene from Trifoliate Orange (Poncirus trifoliata L. Raf.).
    Front Plant Sci, 2016. 7: p. 823
    [PMID:27375669]