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 AT3G13840.1
Common NameMCP4.6, SCL29
Organism
Arabidopsis thaliana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family GRAS
Protein Properties Length: 510aa    MW: 57181.4 Da    PI: 5.1144
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AT3G13840.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS2838.9e-871465102374
         GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykal.ppsetseknsseelaalkl...fsevsPilkfsh 95 
                  ++lL  cA a+++++ +++q++L+ lselas++gd+++Rlaa+ ++AL+++l++  s++++++ p+ + ++ +++   +   +   f+evsP++ + +
  AT3G13840.1 146 EKLLNPCALAITASNSSRVQHYLCVLSELASSSGDANRRLAAFGLRALQHHLSS--SSVSSSFwPVFTFASAEVKMFQK---TllkFYEVSPWFALPN 238
                  6899*************************************************9..77887775777777444444444...4446************ PP

         GRAS  96 ltaNqaIleavege....ervHiiDfdisqGlQWpaLlqaLasRp.egppslRiTgvgspesg....skeeleetgerLakfAeelgvpfefnvlvak 184
                   +aN+aIl+ ++++    + +HiiD+++s+G+QWp+Ll+aL++R  ++pp++RiT++++ +++          ++g++L  fA++l+++++++vl   
  AT3G13840.1 239 NMANSAILQILAQDpkdkKDLHIIDIGVSHGMQWPTLLEALSCRLeGPPPRVRITVISDLTADipfsVGPPGYNYGSQLLGFARSLKINLQISVL--- 333
                  ***********9988877889***********************956667*********99999998888999********************96... PP

         GRAS 185 rledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadh.nsesFlerflealeyysalfdsleaklpresee 281
                       +l+ ++++p+E+l+V+ +++lh+l    +s+++er e+Lk+v+sl+Pk vv++e++ ++ +s++F+++f+++ley+++++ds+++++    +e
  AT3G13840.1 334 ----DKLQLIDTSPHENLIVCAQFRLHHLK---HSINDERGETLKAVRSLRPKGVVLCENNGECsSSADFAAGFSKKLEYVWKFLDSTSSGF----KE 420
                  ....456889*******************8...9999999************************9999********************9997....88 PP

         GRAS 282 rikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374
                  +++ Er+l++ e+++v++++g++    +e +ekW er++eaGF   +++e+a++ ak+llrk++ +++ r+e+ +  + l+Wk++++ ++S W+
  AT3G13840.1 421 ENSEERKLMEGEATKVLMNAGDM----NEGKEKWYERMREAGFFVEAFEEDAVDGAKSLLRKYDnNWEIRMEDGDTFAGLMWKGEAVSFCSLWK 510
                  88889999999***********9....9************************************666666666666666**************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098539.342119489IPR005202Transcription factor GRAS
PfamPF035143.1E-84146510IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0042446Biological Processhormone biosynthetic process
GO:2000032Biological Processregulation of secondary shoot formation
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009005anatomyroot
PO:0009031anatomysepal
PO:0009046anatomyflower
PO:0009047anatomystem
PO:0025022anatomycollective leaf structure
PO:0007611developmental stagepetal differentiation and expansion stage
Sequence ? help Back to Top
Protein Sequence    Length: 510 aa     Download sequence    Send to blast
MLLEETEPPN QTLDHVLSWL EDSVSLSPLP GFDDSYLLHE FDGSQTWEWD QTQDPEHGFI  60
QSYSQDLSAA YVGCEATNLE VVTEAPSIDL DLPPEIQQPN DQSRKRSHDG FLEAQQVKKS  120
ARSKRKAIKS SEKSSKDGNK EGRWAEKLLN PCALAITASN SSRVQHYLCV LSELASSSGD  180
ANRRLAAFGL RALQHHLSSS SVSSSFWPVF TFASAEVKMF QKTLLKFYEV SPWFALPNNM  240
ANSAILQILA QDPKDKKDLH IIDIGVSHGM QWPTLLEALS CRLEGPPPRV RITVISDLTA  300
DIPFSVGPPG YNYGSQLLGF ARSLKINLQI SVLDKLQLID TSPHENLIVC AQFRLHHLKH  360
SINDERGETL KAVRSLRPKG VVLCENNGEC SSSADFAAGF SKKLEYVWKF LDSTSSGFKE  420
ENSEERKLME GEATKVLMNA GDMNEGKEKW YERMREAGFF VEAFEEDAVD GAKSLLRKYD  480
NNWEIRMEDG DTFAGLMWKG EAVSFCSLWK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_B2e-3213551077473Protein SHORT-ROOT
5b3h_B1e-3213551023419Protein SHORT-ROOT
5b3h_E1e-3213551023419Protein SHORT-ROOT
Search in ModeBase
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO184001860.0
Genevisible257605_at0.0
Expression AtlasAT3G13840-
AtGenExpressAT3G13840-
ATTED-IIAT3G13840-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedlings, roots and flowers. {ECO:0000269|PubMed:18500650}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in plant development. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT3G13840.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT3G13840
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0286100.0AB028610.1 Arabidopsis thaliana genomic DNA, chromosome 3, P1 clone: MCP4.
GenBankCP0026860.0CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_188000.10.0GRAS family transcription factor
SwissprotQ9LRW30.0SCL29_ARATH; Scarecrow-like protein 29
TrEMBLA0A178VGN40.0A0A178VGN4_ARATH; Uncharacterized protein
STRINGAT3G13840.10.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM107472834
Representative plantOGRP40821525
Publications ? help Back to Top
  1. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  2. Bolle C
    The role of GRAS proteins in plant signal transduction and development.
    Planta, 2004. 218(5): p. 683-92
    [PMID:14760535]
  3. Tian C,Wan P,Sun S,Li J,Chen M
    Genome-wide analysis of the GRAS gene family in rice and Arabidopsis.
    Plant Mol. Biol., 2004. 54(4): p. 519-32
    [PMID:15316287]
  4. Gao MJ,Parkin I,Lydiate D,Hannoufa A
    An auxin-responsive SCARECROW-like transcriptional activator interacts with histone deacetylase.
    Plant Mol. Biol., 2004. 55(3): p. 417-31
    [PMID:15604690]
  5. Lee MH, et al.
    Large-scale analysis of the GRAS gene family in Arabidopsis thaliana.
    Plant Mol. Biol., 2008. 67(6): p. 659-70
    [PMID:18500650]