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 AT1G50600.1
Common NameF11F12.8, F17J6.12, SCL5
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: 597aa    MW: 66641.3 Da    PI: 6.0683
Description scarecrow-like 5
Gene Model
Gene Model ID Type Source Coding Sequence
AT1G50600.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS449.91.7e-1372295973374
         GRAS   3 elLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshltaNq 100
                   +L+ecA+av++ dle++++l+++l++++s +g+p+qRl ay++e+L arla+s+s++ykal++++ +     e l+++++++e++P++kf++  aN 
  AT1G50600.1 229 GVLYECAKAVENYDLEMTDWLISQLQQMVSVSGEPVQRLGAYMLEGLVARLASSGSSIYKALRCKDPT---GPELLTYMHILYEACPYFKFGYESANG 323
                  689****************************************************************9...9************************** PP

         GRAS 101 aIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefnvlvakrledleleeLrv 196
                  aI eav++e+ vHiiDf+isqG+QW++L++aL +Rp+gpp++RiTg+++p+s+  ++  le +g+rL k+Ae +gvpfef+  +a  ++++e+e+L v
  AT1G50600.1 324 AIAEAVKNESFVHIIDFQISQGGQWVSLIRALGARPGGPPNVRITGIDDPRSSfaRQGGLELVGQRLGKLAEMCGVPFEFHG-AALCCTEVEIEKLGV 420
                  **************************************************999999**************************.899************ PP

         GRAS 197 kpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikvErellgrei 294
                  ++gEalaVn+ l lh+++desv++e++rd++L+lvk+lsP+vv++veqea++n+++Fl rf+e++++y a+f+s+++kl+r+++eri+vE+++l+re+
  AT1G50600.1 421 RNGEALAVNFPLVLHHMPDESVTVENHRDRLLRLVKHLSPNVVTLVEQEANTNTAPFLPRFVETMNHYLAVFESIDVKLARDHKERINVEQHCLAREV 518
                  ************************************************************************************************** PP

         GRAS 295 vnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374
                  vn++aceg er+erhe l+kWr+r+++aGFkp+pls+++++++k ll+ ++++ y++ee++g+l+lgWk++pL++ +aWr
  AT1G50600.1 519 VNLIACEGVEREERHEPLGKWRSRFHMAGFKPYPLSSYVNATIKGLLESYSEK-YTLEERDGALYLGWKNQPLITSCAWR 597
                  ***************************************************65.*************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098566.635201578IPR005202Transcription factor GRAS
PfamPF035145.8E-135229597IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0005829Cellular Componentcytosol
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:0000013anatomycauline leaf
PO:0000037anatomyshoot apex
PO:0000230anatomyinflorescence meristem
PO:0000293anatomyguard cell
PO:0008019anatomyleaf lamina base
PO:0009005anatomyroot
PO:0009006anatomyshoot system
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009029anatomystamen
PO:0009030anatomycarpel
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009047anatomystem
PO:0009052anatomyflower pedicel
PO:0020030anatomycotyledon
PO:0020038anatomypetiole
PO:0020100anatomyhypocotyl
PO:0020137anatomyleaf apex
PO:0025022anatomycollective leaf structure
PO:0025281anatomypollen
PO:0001054developmental stagevascular leaf senescent stage
PO:0001078developmental stageplant embryo cotyledonary stage
PO:0001081developmental stagemature plant embryo stage
PO:0001185developmental stageplant embryo globular stage
PO:0004507developmental stageplant embryo bilateral stage
PO:0007064developmental stageLP.12 twelve leaves visible stage
PO:0007095developmental stageLP.08 eight leaves visible stage
PO:0007098developmental stageLP.02 two leaves visible stage
PO:0007103developmental stageLP.10 ten leaves visible stage
PO:0007115developmental stageLP.04 four leaves visible stage
PO:0007123developmental stageLP.06 six leaves visible stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 597 aa     Download sequence    Send to blast
MRLSVFIIPL VESRQASGII NKQSTSLLIR FSLYLEASIS TKSFFSKSQR ISQTQSPICL  60
SANYYQPDNL DMEATQKHMI QEGSSMFYHQ PSSVKQMDLS VQTFDSYCTL ESSSGTKSHP  120
CLNNKNNSSS TTSFSSNESP ISQANNNNLS RFNNHSPEEN NNSPLSGSSA TNTNETELSL  180
MLKDLETAMM EPDVDNSYNN QGGFGQQHGV VSSAMYRSME MISRGDLKGV LYECAKAVEN  240
YDLEMTDWLI SQLQQMVSVS GEPVQRLGAY MLEGLVARLA SSGSSIYKAL RCKDPTGPEL  300
LTYMHILYEA CPYFKFGYES ANGAIAEAVK NESFVHIIDF QISQGGQWVS LIRALGARPG  360
GPPNVRITGI DDPRSSFARQ GGLELVGQRL GKLAEMCGVP FEFHGAALCC TEVEIEKLGV  420
RNGEALAVNF PLVLHHMPDE SVTVENHRDR LLRLVKHLSP NVVTLVEQEA NTNTAPFLPR  480
FVETMNHYLA VFESIDVKLA RDHKERINVE QHCLAREVVN LIACEGVERE ERHEPLGKWR  540
SRFHMAGFKP YPLSSYVNAT IKGLLESYSE KYTLEERDGA LYLGWKNQPL ITSCAWR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A1e-592315978375GRAS family transcription factor containing protein, expressed
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.148270.0flower| leaf| root| seed| silique
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO306948040.0
Genevisible261860_at0.0
Expression AtlasAT1G50600-
AtGenExpressAT1G50600-
ATTED-IIAT1G50600-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedlings, roots, shoots, leaves, flowers and siliques. {ECO:0000269|PubMed:10341448, ECO:0000269|PubMed:18500650}.
Functional Description ? help Back to Top
Source Description
TAIREncodes a scarecrow-like protein (SCL5). Member of GRAS gene family.
UniProtProbable transcription factor involved in plant development. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT1G50600.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT1G50600
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0008830.0BT000883.1 Arabidopsis thaliana clone C105359 putative scarecrow protein (At1g50600) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001323177.10.0scarecrow-like 5
SwissprotQ8H1250.0SCL5_ARATH; Scarecrow-like protein 5
TrEMBLA0A1P8AW900.0A0A1P8AW90_ARATH; Scarecrow-like 5
STRINGAT1G50600.10.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM62128141
Representative plantOGRP14091447
Publications ? help Back to Top
  1. Pysh LD,Wysocka-Diller JW,Camilleri C,Bouchez D,Benfey PN
    The GRAS gene family in Arabidopsis: sequence characterization and basic expression analysis of the SCARECROW-LIKE genes.
    Plant J., 1999. 18(1): p. 111-9
    [PMID:10341448]
  2. Bolle C,Koncz C,Chua NH
    PAT1, a new member of the GRAS family, is involved in phytochrome A signal transduction.
    Genes Dev., 2000. 14(10): p. 1269-78
    [PMID:10817761]
  3. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  4. Yamada K, et al.
    Empirical analysis of transcriptional activity in the Arabidopsis genome.
    Science, 2003. 302(5646): p. 842-6
    [PMID:14593172]
  5. Bolle C
    The role of GRAS proteins in plant signal transduction and development.
    Planta, 2004. 218(5): p. 683-92
    [PMID:14760535]
  6. Guan Y,Nothnagel EA
    Binding of arabinogalactan proteins by Yariv phenylglycoside triggers wound-like responses in Arabidopsis cell cultures.
    Plant Physiol., 2004. 135(3): p. 1346-66
    [PMID:15235117]
  7. 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]
  8. 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]
  9. 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]
  10. Ito J, et al.
    Analysis of the Arabidopsis cytosolic proteome highlights subcellular partitioning of central plant metabolism.
    J. Proteome Res., 2011. 10(4): p. 1571-82
    [PMID:21166475]
  11. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  12. Gonzalez N, et al.
    A Repressor Protein Complex Regulates Leaf Growth in Arabidopsis.
    Plant Cell, 2015. 27(8): p. 2273-87
    [PMID:26232487]