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 OBART06G00520.1
Organism
Oryza barthii
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: 145aa    MW: 16559 Da    PI: 10.3753
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OBART06G00520.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF88.24.5e-28352251
                     ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
           SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                     rie++++rqvtfskRr+g+lKKA+ELSvLCdaeva+++fs++g+++ ++s
  OBART06G00520.1  3 RIEDTTRRQVTFSKRRKGLLKKASELSVLCDAEVALLVFSPRGRFFHFAS 52
                     8*********************************************9986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd002651.66E-34163No hitNo description
PROSITE profilePS5006626.492154IPR002100Transcription factor, MADS-box
SuperFamilySSF554557.59E-27181IPR002100Transcription factor, MADS-box
SMARTSM004322.9E-28153IPR002100Transcription factor, MADS-box
PfamPF003194.9E-26350IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-151631IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-153152IPR002100Transcription 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: 145 aa     Download sequence    Send to blast
MRRIEDTTRR QVTFSKRRKG LLKKASELSV LCDAEVALLV FSPRGRFFHF ASAPSLEGTI  60
DRYISHTQEA PANKKPRELT VKQKKLMDKI SQLQQQEKIL SEENALLLDQ GKVQHAPIGA  120
PAREMNQNQH VQDIDVDTEL VIGRR
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
UniProtProbable transcription factor.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2410551e-131AK241055.1 Oryza sativa Japonica Group cDNA, clone: J065063N18, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015642540.19e-81MADS-box transcription factor 50-like isoform X1
RefseqXP_015642541.19e-81MADS-box transcription factor 50-like isoform X1
SwissprotA2Z9Q78e-31MAD56_ORYSI; MADS-box transcription factor 56
SwissprotP0C5B28e-31MAD56_ORYSJ; MADS-box transcription factor 56
TrEMBLA0A0D3GBW61e-102A0A0D3GBW6_9ORYZ; Uncharacterized protein
STRINGOBART06G00520.27e-98(Oryza barthii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G45660.11e-30AGAMOUS-like 20
Publications ? help Back to Top
  1. Rice Chromosome 10 Sequencing Consortium
    In-depth view of structure, activity, and evolution of rice chromosome 10.
    Science, 2003. 300(5625): p. 1566-9
    [PMID:12791992]
  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. Bai Z, et al.
    The impact and origin of copy number variations in the Oryza species.
    BMC Genomics, 2016. 17: p. 261
    [PMID:27025496]
  4. Shibaya T, et al.
    Hd18, Encoding Histone Acetylase Related to Arabidopsis FLOWERING LOCUS D, is Involved in the Control of Flowering Time in Rice.
    Plant Cell Physiol., 2016. 57(9): p. 1828-38
    [PMID:27318280]
  5. Han Z,Zhang B,Zhao H,Ayaad M,Xing Y
    Genome-Wide Association Studies Reveal that Diverse Heading Date Genes Respond to Short and Long Day Lengths between Indica and Japonica Rice.
    Front Plant Sci, 2016. 7: p. 1270
    [PMID:27621738]