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 Lj4g3v1327620.2
Organism
Lotus japonicus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus
Family MIKC_MADS
Protein Properties Length: 202aa    MW: 23647.9 Da    PI: 5.3057
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lj4g3v1327620.2genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF97.26.9e-31959151
                     S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
           SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                     krien++ rqvtfskRrng+lKKA+ELSvLCdaeva+iifs+tgklye+ss
  Lj4g3v1327620.2  9 KRIENETSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSTTGKLYEFSS 59
                     79***********************************************96 PP
2K-box56.21.5e-19841731099
            K-box  10 eeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                      +e+++   + ++  + + ie+L+ ++R+llGe+L++  + eL q+e+qLe sl+kiR++K++l++e ie+l++ e++l eenk+L+ ++e
  Lj4g3v1327620.2  84 QENTQHLKEGDHMSIARMIEQLEISKRKLLGEELDTYAIDELVQIENQLEYSLSKIRATKSQLFKERIEKLKEEERSLLEENKRLQCRFE 173
                      44433334457888999********************************************************************97765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004328.4E-41160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.212161IPR002100Transcription factor, MADS-box
PRINTSPR004043.3E-31323IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.22E-33373IPR002100Transcription factor, MADS-box
CDDcd002653.44E-41370No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003193.1E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004043.3E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004043.3E-313859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129713.46688178IPR002487Transcription factor, K-box
PfamPF014862.9E-2088172IPR002487Transcription 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: 202 aa     Download sequence    Send to blast
MVRGKTQMKR IENETSRQVT FSKRRNGLLK KAFELSVLCD AEVALIIFST TGKLYEFSSS  60
SINKIVERYQ RKVNDLGLST KEIQENTQHL KEGDHMSIAR MIEQLEISKR KLLGEELDTY  120
AIDELVQIEN QLEYSLSKIR ATKSQLFKER IEKLKEEERS LLEENKRLQC RFEQQRSSNK  180
PDVELIVEEQ GEEEVETELF IG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-21169169MEF2C
5f28_B1e-21169169MEF2C
5f28_C1e-21169169MEF2C
5f28_D1e-21169169MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Lja.165480.0root
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLj4g3v1327620.2
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT1382860.0BT138286.1 Lotus japonicus clone JCVI-FLLj-10I22 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001240979.14e-97uncharacterized protein LOC100805260
RefseqXP_006579439.14e-97uncharacterized protein LOC100805260 isoform X2
RefseqXP_028231661.14e-97agamous-like MADS-box protein AGL19 isoform X2
RefseqXP_028231662.14e-97agamous-like MADS-box protein AGL19 isoform X2
SwissprotO827438e-68AGL19_ARATH; Agamous-like MADS-box protein AGL19
TrEMBLC6TNA08e-96C6TNA0_SOYBN; Uncharacterized protein
STRINGGLYMA05G03660.83e-94(Glycine max)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G11880.13e-61AGAMOUS-like 14
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]