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 ORGLA12G0056500.1
Organism
Oryza glaberrima
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family MIKC_MADS
Protein Properties Length: 270aa    MW: 30238.5 Da    PI: 9.5082
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA12G0056500.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF95.52.3e-30959151
                       S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
             SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                       krien++ rqvtf+kRrng+lKKA+ELSvLCda+va+i+fss+g+lyeys+
  ORGLA12G0056500.1  9 KRIENTTSRQVTFCKRRNGLLKKAYELSVLCDADVALIVFSSRGRLYEYSN 59
                       79***********************************************95 PP
2K-box99.64.4e-338617610100
              K-box  10 eeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                        e + ++++qqe+akL+ +i++Lq++++hl+G+++++LslkeL+qLe++Lek++ kiR++Knell ++i+++ k+e elq++n++Lr+k++e
  ORGLA12G0056500.1  86 EVNAQQYYQQESAKLRHQIQMLQNTNKHLVGDNVSNLSLKELKQLESRLEKGIAKIRARKNELLASEINYMAKREIELQNDNMDLRTKIAE 176
                        567789**********************************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.249161IPR002100Transcription factor, MADS-box
SMARTSM004324.5E-41160IPR002100Transcription factor, MADS-box
SuperFamilySSF554556.93E-32276IPR002100Transcription factor, MADS-box
CDDcd002651.65E-41275No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004041.7E-31323IPR002100Transcription factor, MADS-box
PfamPF003191.5E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004041.7E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004041.7E-313859IPR002100Transcription factor, MADS-box
PfamPF014869.4E-2587174IPR002487Transcription factor, K-box
PROSITE profilePS5129714.96890180IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048283Biological Processindeterminate inflorescence morphogenesis
GO:0048316Biological Processseed development
GO:0048481Biological Processplant ovule development
GO:0080155Biological Processregulation of double fertilization forming a zygote and endosperm
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: 270 aa     Download sequence    Send to blast
MGRGRIEIKR IENTTSRQVT FCKRRNGLLK KAYELSVLCD ADVALIVFSS RGRLYEYSNN  60
NNVKATIDRY KKAHACGSTS GAPLIEVNAQ QYYQQESAKL RHQIQMLQNT NKHLVGDNVS  120
NLSLKELKQL ESRLEKGIAK IRARKNELLA SEINYMAKRE IELQNDNMDL RTKIAEEEQQ  180
LQQVTVARSA AMELQAAAAA QQQQQNPFAV AAAQLDMKCF FPLNLFEAAA QVQAVAAQRQ  240
QIIPTELNLG YHHHLAIPGA AAADAPPPHF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P5e-18161161Myocyte-specific enhancer factor 2B
1tqe_Q5e-18161161Myocyte-specific enhancer factor 2B
1tqe_R5e-18161161Myocyte-specific enhancer factor 2B
1tqe_S5e-18161161Myocyte-specific enhancer factor 2B
5f28_A5e-18161161MEF2C
5f28_B5e-18161161MEF2C
5f28_C5e-18161161MEF2C
5f28_D5e-18161161MEF2C
6c9l_A5e-18161161Myocyte-specific enhancer factor 2B
6c9l_B5e-18161161Myocyte-specific enhancer factor 2B
6c9l_C5e-18161161Myocyte-specific enhancer factor 2B
6c9l_D5e-18161161Myocyte-specific enhancer factor 2B
6c9l_E5e-18161161Myocyte-specific enhancer factor 2B
6c9l_F5e-18161161Myocyte-specific enhancer factor 2B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapORGLA12G0056500.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF1516930.0AF151693.1 Oryza sativa transcription factor (MADS13) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015618486.10.0MADS-box transcription factor 13 isoform X2
RefseqXP_015618487.10.0MADS-box transcription factor 13 isoform X2
SwissprotQ2QW530.0MAD13_ORYSJ; MADS-box transcription factor 13
TrEMBLI1R4V90.0I1R4V9_ORYGL; Uncharacterized protein
STRINGORGLA12G0056500.10.0(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP64937144
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G18960.18e-82MIKC_MADS family protein
Publications ? help Back to Top
  1. Gindullis F,Rose A,Patel S,Meier I
    Four signature motifs define the first class of structurally related large coiled-coil proteins in plants.
    BMC Genomics, 2002. 3: p. 9
    [PMID:11972898]
  2. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  3. Yamaki S,Satoh H,Nagato Y
    Gypsy embryo specifies ovule curvature by regulating ovule/integument development in rice.
    Planta, 2005. 222(3): p. 408-17
    [PMID:16001259]
  4. Dreni L, et al.
    The D-lineage MADS-box gene OsMADS13 controls ovule identity in rice.
    Plant J., 2007. 52(4): p. 690-9
    [PMID:17877710]
  5. Yamaki S,Nagato Y,Kurata N,Nonomura K
    Ovule is a lateral organ finally differentiated from the terminating floral meristem in rice.
    Dev. Biol., 2011. 351(1): p. 208-16
    [PMID:21146515]
  6. Li H,Liang W,Yin C,Zhu L,Zhang D
    Genetic interaction of OsMADS3, DROOPING LEAF, and OsMADS13 in specifying rice floral organ identities and meristem determinacy.
    Plant Physiol., 2011. 156(1): p. 263-74
    [PMID:21444646]
  7. Li H, et al.
    Rice MADS6 interacts with the floral homeotic genes SUPERWOMAN1, MADS3, MADS58, MADS13, and DROOPING LEAF in specifying floral organ identities and meristem fate.
    Plant Cell, 2011. 23(7): p. 2536-52
    [PMID:21784949]