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 KN538967.1_FGP005
Organism
Oryza longistaminata
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: 105aa    MW: 11350 Da    PI: 11.1698
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN538967.1_FGP005genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF901.3e-2852101251
                        ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
             SRF-TF   2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 
                        rie+ + rqvtfskRr g+lKKA+ELSvLCdaeva+i+fs++g+ly ++s
  KN538967.1_FGP005  52 RIEDATSRQVTFSKRRSGLLKKAFELSVLCDAEVALIVFSPRGRLYQFAS 101
                        8***********************************************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006629.71643103IPR002100Transcription factor, MADS-box
SMARTSM004321.8E-3543102IPR002100Transcription factor, MADS-box
PRINTSPR004044.7E-294565IPR002100Transcription factor, MADS-box
SuperFamilySSF554558.76E-2745103IPR002100Transcription factor, MADS-box
PROSITE patternPS0035004599IPR002100Transcription factor, MADS-box
PfamPF003196.8E-275299IPR002100Transcription factor, MADS-box
PRINTSPR004044.7E-296580IPR002100Transcription factor, MADS-box
PRINTSPR004044.7E-2980101IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 105 aa     Download sequence    Send to blast
MAAAAAGMGG GGGVQQQQET TTTVVQVAAE ASRKKQVEVR CAGRRGRREM RRIEDATSRQ  60
VTFSKRRSGL LKKAFELSVL CDAEVALIVF SPRGRLYQFA SASSE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3mu6_A8e-1945105262Myocyte-specific enhancer factor 2A
3mu6_B8e-1945105262Myocyte-specific enhancer factor 2A
3mu6_C8e-1945105262Myocyte-specific enhancer factor 2A
3mu6_D8e-1945105262Myocyte-specific enhancer factor 2A
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapKN538967.1_FGP005
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0040491e-157AP004049.2 Oryza sativa Japonica Group genomic DNA, chromosome 2, BAC clone:OJ1212_C06.
GenBankAP0067201e-157AP006720.1 Oryza sativa Japonica Group genomic DNA, chromosome 2, clone:OJA1212_C06.
GenBankAP0149581e-157AP014958.1 Oryza sativa Japonica Group DNA, chromosome 2, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015625202.12e-41MADS-box protein SOC1 isoform X1
RefseqXP_015625203.12e-41MADS-box protein SOC1 isoform X2
SwissprotA2Z9Q72e-31MAD56_ORYSI; MADS-box transcription factor 56
SwissprotP0C5B22e-31MAD56_ORYSJ; MADS-box transcription factor 56
TrEMBLA0A0E0N8J42e-42A0A0E0N8J4_ORYRU; Uncharacterized protein
TrEMBLA2WZT92e-42A2WZT9_ORYSI; Uncharacterized protein
TrEMBLQ6YPH12e-42Q6YPH1_ORYSJ; MADS-box protein PTM5-like
STRINGORGLA02G0003200.12e-41(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
AT4G11880.13e-28AGAMOUS-like 14
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]