PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID ORGLA04G0120000.1
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 M-type_MADS
Protein Properties Length: 99aa    MW: 11297 Da    PI: 10.0427
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA04G0120000.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF91.54.1e-291059251
                       ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
             SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                       ri+n++ rqvtfskRrngi+KKA+EL +LCdaev ++ifsstg+lyey+s
  ORGLA04G0120000.1 10 RIDNSTSRQVTFSKRRNGIFKKAKELAILCDAEVGLVIFSSTGRLYEYAS 59
                       8***********************************************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.805161IPR002100Transcription factor, MADS-box
SMARTSM004321.7E-39160IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.44E-33285IPR002100Transcription factor, MADS-box
CDDcd002651.84E-43277No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004048.2E-29323IPR002100Transcription factor, MADS-box
PfamPF003192.8E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004048.2E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004048.2E-293859IPR002100Transcription factor, MADS-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:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 99 aa     Download sequence    Send to blast
MGRGKIVIRR IDNSTSRQVT FSKRRNGIFK KAKELAILCD AEVGLVIFSS TGRLYEYAST  60
SMKSVIDRYG RAKEEQQHVA NPNSELKEFC SVFIYITEN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A7e-23188186MEF2C
5f28_B7e-23188186MEF2C
5f28_C7e-23188186MEF2C
5f28_D7e-23188186MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapORGLA04G0120000.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2436697e-97AK243669.1 Oryza sativa Japonica Group cDNA, clone: J100089N11, full insert sequence.
GenBankAL6064607e-97AL606460.3 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBa0072F16, complete sequence.
GenBankAP0149607e-97AP014960.1 Oryza sativa Japonica Group DNA, chromosome 4, cultivar: Nipponbare, complete sequence.
GenBankBX8426057e-97BX842605.1 Oryza sativa genomic DNA, chromosome 4, BAC clone: B1358B12, complete sequence.
GenBankCP0126127e-97CP012612.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 4 sequence.
GenBankCR8552037e-97CR855203.1 Oryza sativa genomic DNA, chromosome 4, BAC clone: H0219H12, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015636306.16e-57MADS-box transcription factor 27-like
SwissprotQ6EP496e-54MAD27_ORYSJ; MADS-box transcription factor 27
TrEMBLI1PLY11e-66I1PLY1_ORYGL; Uncharacterized protein
TrEMBLQ6MWF21e-66Q6MWF2_ORYSJ; B1358B12.2 protein
STRINGORGLA04G0120000.12e-67(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP12938398
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G37940.11e-46AGAMOUS-like 21
Publications ? help Back to Top
  1. Puig J, et al.
    Analysis of the expression of the AGL17-like clade of MADS-box transcription factors in rice.
    Gene Expr. Patterns, 2013 Jun-Jul. 13(5-6): p. 160-70
    [PMID:23466806]
  2. Yu C, et al.
    The effects of fluctuations in the nutrient supply on the expression of five members of the AGL17 clade of MADS-box genes in rice.
    PLoS ONE, 2014. 9(8): p. e105597
    [PMID:25140876]