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 Pavir.5NG096100.1.p
Organism
Panicum virgatum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family M-type_MADS
Protein Properties Length: 102aa    MW: 11533.2 Da    PI: 11.7814
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG096100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF47.72e-154274234
                         ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-E CS
               SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdae 34
                         rie+ + rqv fskRr+g++KKA+EL  LCdae
  Pavir.5NG096100.1.p 42 RIEDRISRQVRFSKRRAGLFKKAFELWLLCDAE 74
                         8******************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.4E-113286IPR002100Transcription factor, MADS-box
PROSITE profilePS5006619.3853374IPR002100Transcription factor, MADS-box
PRINTSPR004043.1E-123555IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.62E-153674IPR002100Transcription factor, MADS-box
PfamPF003192.4E-144274IPR002100Transcription factor, MADS-box
PRINTSPR004043.1E-125570IPR002100Transcription 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: 102 aa     Download sequence    Send to blast
MAHLPAAARS DWRRPGFPAG GRRAAGARAK AMLRHGRVEL RRIEDRISRQ VRFSKRRAGL  60
FKKAFELWLL CDAENQDDAS SDLKSRIKEI TTWSLQNNAE S*
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Widely expressed. {ECO:0000269|PubMed:10382970}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the regulation of flowering time under short day (SD) conditions. Functions as promoter of flowering under SD conditions, upstream of EHD1, HD3A and MADS14, but downstream of GIGANTEA (GI). May transmit a SD promotion signal from GI to EHD1. Functions independently of MADS50 to control flowering time. {ECO:0000269|PubMed:17951465}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG096100.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKF1848195e-42KF184819.1 Saccharum hybrid cultivar R570 clone BAC 004J16 complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_008673731.12e-23MADS-box transcription factor 51
SwissprotQ9XJ617e-20MAD51_ORYSJ; MADS-box transcription factor 51
TrEMBLA0A0A9D7Q64e-22A0A0A9D7Q6_ARUDO; Uncharacterized protein
STRINGPavir.Eb00729.1.p4e-40(Panicum virgatum)
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
AT5G15800.16e-15MIKC_MADS family protein
Publications ? help Back to Top
  1. 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]
  2. Kim SL,Lee S,Kim HJ,Nam HG,An G
    OsMADS51 is a short-day flowering promoter that functions upstream of Ehd1, OsMADS14, and Hd3a.
    Plant Physiol., 2007. 145(4): p. 1484-94
    [PMID:17951465]