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 GRMZM2G131516_P02
Common NameSCR
Organism
Zea mays
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Tripsacinae; Zea
Family GRAS
Protein Properties Length: 668aa    MW: 71162.8 Da    PI: 6.6187
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GRMZM2G131516_P02genomeMaizeSequenceView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS417.61.1e-1273006602374
               GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetsekn.sseelaalklfsevsPilk 92 
                         +lLl+cAeav++++l  a+++L ++ ela+p g+++qR+aayf+eA++arl++s+ +ly+ lpp + +  + + +++aa+++f+ +sP++k
  GRMZM2G131516_P02 300 LTLLLQCAEAVNADNLDDAHQTLLEIAELATPFGTSTQRVAAYFAEAMSARLVSSCLGLYAPLPPGSPAAARlHGRVAAAFQVFNGISPFVK 391
                        579************************************************************77666655548899999************ PP

               GRAS  93 fshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvak 184
                        fsh+taNqaI ea+e+eervHiiD+di+qGlQWp L++ LasRp+gpp++R+Tg+g+    s e+le+tg+rL++fA++lg+pfef + va+
  GRMZM2G131516_P02 392 FSHFTANQAIQEAFEREERVHIIDLDIMQGLQWPGLFHILASRPGGPPRVRLTGLGA----SMEALEATGKRLSDFADTLGLPFEFCA-VAE 478
                        *********************************************************....***************************.7** PP

               GRAS 185 rledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklp 276
                        +  ++++e+L v ++Ea+aV++ +  h+l+d ++s ++    +L+l+++l Pkvv++veq+++h s+sFl+rf+ea++yysalfdsl+a+++
  GRMZM2G131516_P02 479 KAGNVDPEKLGVTRREAVAVHWLH--HSLYDVTGSDSN----TLWLIQRLAPKVVTMVEQDLSH-SGSFLARFVEAIHYYSALFDSLDASYG 563
                        ***********************9..999999999999....**********************.899************************ PP

               GRAS 277 reseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLv 368
                        ++s er++vE++ll+rei+nv+a  g +r+ + + +++Wre+l ++GF++++l  +aa+qa+lll +++sdgy++ ee+g+l lgWkd  L+
  GRMZM2G131516_P02 564 EDSPERHVVEQQLLSREIRNVLAVGGPARTGDVK-FGSWREKLAQSGFRAASLAGSAAAQASLLLGMFPSDGYTLVEENGALKLGWKDLCLL 654
                        ****************************999987.********************************************************* PP

               GRAS 369 svSaWr 374
                        ++SaWr
  GRMZM2G131516_P02 655 TASAWR 660
                        *****8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098562.865273640IPR005202Transcription factor GRAS
PfamPF035143.9E-125300660IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0008356Biological Processasymmetric cell division
GO:0009630Biological Processgravitropism
GO:0009956Biological Processradial pattern formation
GO:0048366Biological Processleaf development
GO:0051457Biological Processmaintenance of protein location in nucleus
GO:0090610Biological Processbundle sheath cell fate specification
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000037anatomyshoot apex
PO:0006339anatomyjuvenile vascular leaf
PO:0006340anatomyadult vascular leaf
PO:0006341anatomyprimary shoot system
PO:0006354anatomyear floret
PO:0006505anatomycentral spike of ear inflorescence
PO:0008018anatomytransition vascular leaf
PO:0009001anatomyfruit
PO:0009009anatomyplant embryo
PO:0009025anatomyvascular leaf
PO:0009054anatomyinflorescence bract
PO:0009074anatomystyle
PO:0009089anatomyendosperm
PO:0020040anatomyleaf base
PO:0020104anatomyleaf sheath
PO:0020126anatomytassel inflorescence
PO:0020127anatomyprimary root
PO:0020136anatomyear inflorescence
PO:0020142anatomystem internode
PO:0020148anatomyshoot apical meristem
PO:0025142anatomyleaf tip
PO:0025287anatomyseedling coleoptile
PO:0001007developmental stagepollen development stage
PO:0001052developmental stagevascular leaf expansion stage
PO:0001053developmental stagevascular leaf post-expansion stage
PO:0001083developmental stageinflorescence development stage
PO:0001095developmental stageplant embryo true leaf formation stage
PO:0001180developmental stageplant proembryo stage
PO:0007001developmental stageearly whole plant fruit ripening stage
PO:0007003developmental stageIL.03 full inflorescence length reached stage
PO:0007006developmental stageIL.00 inflorescence just visible stage
PO:0007016developmental stagewhole plant flowering stage
PO:0007026developmental stageFL.00 first flower(s) open stage
PO:0007031developmental stagemid whole plant fruit ripening stage
PO:0007032developmental stagewhole plant fruit formation stage up to 10%
PO:0007045developmental stagecoleoptile emergence stage
PO:0007063developmental stageLP.07 seven leaves visible stage
PO:0007065developmental stageLP.05 five leaves visible stage
PO:0007072developmental stageLP.18 eighteen leaves visible stage
PO:0007094developmental stageLP.01 one leaf visible stage
PO:0007101developmental stageLP.09 nine leaves visible stage
PO:0007104developmental stageLP.15 fifteen leaves visible stage
PO:0007106developmental stageLP.03 three leaves visible stage
PO:0007112developmental stage1 main shoot growth stage
PO:0007116developmental stageLP.11 eleven leaves visible stage
PO:0007123developmental stageLP.06 six leaves visible stage
PO:0007633developmental stageendosperm development stage
PO:0021004developmental stageinflorescence initiation stage
Sequence ? help Back to Top
Protein Sequence    Length: 668 aa     Download sequence    Send to blast
MPPPPPPPPL TPYCRRCPPP HLPPPPPSSP NHFLLHYLHQ LDHQEAAAAA MVRKRPASDM  60
DLPPPRRHVT GDLSDVTAAA AAGVGGSGAP SSASAQLPAL PTQLHQLPPA FQHHAPEVDV  120
PAHPAPAAHA QAGGEATAST TAWVDGIIRD IIGSSGGAAV SITQLIHNVR EIIHPCNPGL  180
ASLLELRLRS LLAADPAPLP PPPQPQQHAL LHGAPAAAPA GLTLPPPPPL PDKRRHEHPP  240
PCQQQQQEEP HPAPQSPKAP TAEETAAAAA AAQAAAAAAA KERKEEQRRK QRDEEGLHLL  300
TLLLQCAEAV NADNLDDAHQ TLLEIAELAT PFGTSTQRVA AYFAEAMSAR LVSSCLGLYA  360
PLPPGSPAAA RLHGRVAAAF QVFNGISPFV KFSHFTANQA IQEAFEREER VHIIDLDIMQ  420
GLQWPGLFHI LASRPGGPPR VRLTGLGASM EALEATGKRL SDFADTLGLP FEFCAVAEKA  480
GNVDPEKLGV TRREAVAVHW LHHSLYDVTG SDSNTLWLIQ RLAPKVVTMV EQDLSHSGSF  540
LARFVEAIHY YSALFDSLDA SYGEDSPERH VVEQQLLSRE IRNVLAVGGP ARTGDVKFGS  600
WREKLAQSGF RAASLAGSAA AQASLLLGMF PSDGYTLVEE NGALKLGWKD LCLLTASAWR  660
PIQVPPCR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A0.02836613380Protein SCARECROW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Zm.147570.0ear| meristem| ovary| shoot
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasGRMZM2G131516
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in early stages of lateral root primordium formation, becoming restricted to the endodermal cell lineage at later stages. {ECO:0000269|PubMed:10948251}.
UniprotTISSUE SPECIFICITY: Expressed in the root endodermis and in a single file of cells through the quiescent center. {ECO:0000269|PubMed:10948251}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in establishing and maintaining the correct radial pattern in the root apical meristem. {ECO:0000269|PubMed:10948251}.
Function -- GeneRIF ? help Back to Top
  1. Mutations in the Scarecrow gene result in proliferation of bundle sheath cells, abnormal differentiation of bundle sheath chloroplasts, vein disorientation, loss of minor veins and reduction of vein density.
    [PMID: 23128603]
Cis-element ? help Back to Top
SourceLink
PlantRegMapGRMZM2G131516_P02
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF2634570.0AF263457.1 Zea mays SCARECROW (SCR) gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001168484.10.0protein SCARECROW
SwissprotQ9FUZ70.0SCR_MAIZE; Protein SCARECROW
TrEMBLA0A1Q0YY060.0A0A1Q0YY06_MAIZE; Scarecrow1
STRINGGRMZM2G131516_P020.0(Zea mays)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP137138122
Representative plantOGRP21831437
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G54220.10.0GRAS family protein
Publications ? help Back to Top
  1. Lim J, et al.
    Molecular analysis of the SCARECROW gene in maize reveals a common basis for radial patterning in diverse meristems.
    Plant Cell, 2000. 12(8): p. 1307-18
    [PMID:10948251]
  2. Lim J, et al.
    Conservation and diversification of SCARECROW in maize.
    Plant Mol. Biol., 2005. 59(4): p. 619-30
    [PMID:16244911]
  3. Slewinski TL,Anderson AA,Zhang C,Turgeon R
    Scarecrow plays a role in establishing Kranz anatomy in maize leaves.
    Plant Cell Physiol., 2012. 53(12): p. 2030-7
    [PMID:23128603]