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 RrC11671_p1
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family TALE
Protein Properties Length: 463aa    MW: 52876.4 Da    PI: 6.7616
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC11671_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox25.52.3e-083764141854
                  HHHH..SSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHH CS
     Homeobox  18 lFek..nrypsaeereeLAkklgLterqVkvWFqNrRak 54 
                  +F++  ++yp+ +e+  LA + gLt +qV++WF N R +
  RrC11671_p1 376 MFQNflHPYPKDSEKHLLAIRSGLTRSQVSNWFINARVR 414
                  5887779******************************88 PP
2BELL911.2e-29251321172
         BELL   1 erqelqkkkakLlslleeVdkrYkqyveqlqtvissFeavaglgsakpYtslAlkaiSrhFrcLkdaiaeqi 72 
                  +rq+l++kk++Ll+ll++Vd+rY+++v++++tv+s+F+a+++l++ +++t++Al++iS  +++L+++i+++i
  RrC11671_p1 251 QRQALEAKKTHLLDLLQMVDDRYSHCVDEIHTVVSAFHAATELDP-QLHTRFALQTISYLYKNLRERISKKI 321
                  689******************************************.***********************998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005742.3E-42187319IPR006563POX domain
PfamPF075264.4E-28192318IPR006563POX domain
PROSITE profilePS5007110.981355418IPR001356Homeobox domain
SMARTSM003891.1E-4358422IPR001356Homeobox domain
CDDcd000866.46E-10358419No hitNo description
SuperFamilySSF466898.13E-15359427IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.603.9E-25361424IPR009057Homeodomain-like
PfamPF059201.5E-14375414IPR008422Homeobox KN domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0008285Biological Processnegative regulation of cell proliferation
GO:0009640Biological Processphotomorphogenesis
GO:0010073Biological Processmeristem maintenance
GO:0010227Biological Processfloral organ abscission
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0010371Biological Processregulation of gibberellin biosynthetic process
GO:0090470Biological Processshoot organ boundary specification
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 463 aa     Download sequence    Send to blast
MDNNNTFSSL DNVMTNQNYL LMDLIPSRED PTSFSTMLPW NSIRQDPLQM GGFDIFNSFL  60
TNKYLSSTPR STNVQETSFE AMAPPPPPPP LHHLDHFRPP YDDSSNNMWS LGENSEFHAY  120
PYVEGVVGPS EPIISTFGEE DFPRNELSLS LATDVSDECS GMSLCAATKY TRISSEQASS  180
STKNVSNNVS RVIFGSKYLH SVQEILSHFA TYSLNGIENN PQCYFSSRET ESEGTNSAYE  240
NLNEFLDGGS QRQALEAKKT HLLDLLQMVD DRYSHCVDEI HTVVSAFHAA TELDPQLHTR  300
FALQTISYLY KNLRERISKK ILVMGSVLER GKEKSQEDSI FHQHCLLQQL KRKNHQIWRP  360
QRGLPEKSVS VLRTWMFQNF LHPYPKDSEK HLLAIRSGLT RSQVSNWFIN ARVRLWKPMI  420
EDMYAEMNKR KMSNTHLQGG NGGSITRVPK SVMMSQGRDK IRE
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor which may be involved in the signal transduction pathway downstream of the COP1 gene. Controls floral competency as a specific activator of FLC expression. Is responsive of the nuclear import of SHOOT MERISTEMLESS (STM). {ECO:0000269|PubMed:17908157}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By light. In etiolated seedlings, maximally expressed after 3 days of illumination.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0721740.0AY072174.1 Arabidopsis thaliana putative homeobox gene ATH1 protein (At4g32980) mRNA, complete cds.
GenBankAY0965130.0AY096513.1 Arabidopsis thaliana putative homeobox gene ATH1 protein (At4g32980) mRNA, complete cds.
GenBankX801260.0X80126.1 A.thaliana AtH1 mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018471633.10.0PREDICTED: homeobox protein ATH1
SwissprotP487310.0ATH1_ARATH; Homeobox protein ATH1
TrEMBLA0A3P6F7K90.0A0A3P6F7K9_BRAOL; Uncharacterized protein
STRINGBo1g008560.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM82282637
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G32980.10.0homeobox gene 1
Publications ? help Back to Top
  1. Khan M, et al.
    Repression of Lateral Organ Boundary Genes by PENNYWISE and POUND-FOOLISH Is Essential for Meristem Maintenance and Flowering in Arabidopsis.
    Plant Physiol., 2015. 169(3): p. 2166-86
    [PMID:26417006]