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 Sobic.002G421800.2.p
Organism
Sorghum bicolor
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; Sorghinae; Sorghum
Family WOX
Protein Properties Length: 261aa    MW: 27606.8 Da    PI: 9.6014
Description WOX family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.002G421800.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox48.11.9e-151777257
                          T--SS--HHHHHHHHHHHHH.SSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
              Homeobox  2 rkRttftkeqleeLeelFek.nrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                          r+R+t+++eq+ +Le+ F++   +p ++e  ++ k l     + +++V++WFqNrR + ++
  Sobic.002G421800.2.p 17 RSRWTPKPEQILILESIFNSgMVNPPKDETVRIRKLLerfgAVGDANVFYWFQNRRSRSRR 77
                          89*****************99*************************************997 PP
2Wus_type_Homeobox107.39e-351679265
     Wus_type_Homeobox  2 artRWtPtpeQikiLeelyksGlrtPnkeeiqritaeLeeyGkiedkNVfyWFQNrkaRerqkq 65
                          +r+RWtP+peQi iLe++++sG+++P+k+e+ ri++ Le++G+++d+NVfyWFQNr++R+r++q
  Sobic.002G421800.2.p 16 VRSRWTPKPEQILILESIFNSGMVNPPKDETVRIRKLLERFGAVGDANVFYWFQNRRSRSRRRQ 79
                          589***********************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007111.241378IPR001356Homeobox domain
SuperFamilySSF466891.03E-131484IPR009057Homeodomain-like
SMARTSM003893.9E-61582IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.601.7E-81784IPR009057Homeodomain-like
PfamPF000463.6E-131777IPR001356Homeobox domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009734Biological Processauxin-activated signaling pathway
GO:0048830Biological Processadventitious root development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 261 aa     Download sequence    Send to blast
MEGGLSPERH AAAEPVRSRW TPKPEQILIL ESIFNSGMVN PPKDETVRIR KLLERFGAVG  60
DANVFYWFQN RRSRSRRRQR QLQAQAAAAA AAGSSSSSGS PPTTGLAPGH AAASSTMGMF  120
AHGAAYGSSA STSWPPSPPP SSAAMMGDLD YGGGDDLFAI SRQMGYANGG GSGSASSAAV  180
AHHEQQLYYS PCQPGERAKS HAMHACFVLS IQGSIDAWFS STSLPSSGKL NPFTASPFGS  240
YPYWHARHNI IIFINTSQSI *
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In crown roots, mainly expressed after crown roots emergence but barely in crown root initials. {ECO:0000269|PubMed:26307379}.
UniprotTISSUE SPECIFICITY: Present in crown roots. {ECO:0000269|PubMed:26307379}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor involved in crown root development (PubMed:26307379, PubMed:29740464). Promotes the development of crown roots (both initiation and elongation), main components of the fibrous root system (PubMed:26307379, PubMed:29740464). Regulates the expression of genes required for crown root development, and hormone-responsive genes involved in cytokinin signaling (e.g. RR1, RR2, RR3 and RR4), and auxin signaling (e.g. IAA5, IAA11, IAA23 and IAA31) (PubMed:26307379). Functions dowstream of the auxin biosynthetic genes YUCCA1 in the promotion of crown root development (PubMed:29740464). {ECO:0000269|PubMed:26307379, ECO:0000269|PubMed:29740464}.
UniProtTranscription factor which may be involved in developmental processes. Promotes the development of crown roots (both initiation and elongation), main components of the fibrous root system, by regulating the expression of genes required for crown root development and hormone-responsive genes involved in cytokinin (e.g. RR1, RR2, RR3 and RR4) and auxin (e.g. IAA5, IAA11, IAA23 and IAA31) signaling. {ECO:0000250|UniProtKB:Q0D3I7}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00330DAPTransfer from AT3G03660Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.002G421800.2.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0635031e-105AK063503.1 Oryza sativa Japonica Group cDNA clone:001-116-E11, full insert sequence.
GenBankAK0732321e-105AK073232.1 Oryza sativa Japonica Group cDNA clone:J033021B15, full insert sequence.
GenBankAP0051671e-105AP005167.4 Oryza sativa Japonica Group genomic DNA, chromosome 7, BAC clone:OSJNBa0060O17.
GenBankAP0149631e-105AP014963.1 Oryza sativa Japonica Group DNA, chromosome 7, cultivar: Nipponbare, complete sequence.
GenBankCP0126151e-105CP012615.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 7 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021308503.11e-138WUSCHEL-related homeobox 11
SwissprotB8B6444e-54WOX11_ORYSI; WUSCHEL-related homeobox 11
SwissprotQ0D3I74e-54WOX11_ORYSJ; WUSCHEL-related homeobox 11
TrEMBLA0A1W0W8200.0A0A1W0W820_SORBI; Uncharacterized protein
STRINGSb02g043300.11e-137(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP107837109
Representative plantOGRP46971222
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G03660.11e-34WUSCHEL related homeobox 11
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. Zhao Y, et al.
    The Interaction between Rice ERF3 and WOX11 Promotes Crown Root Development by Regulating Gene Expression Involved in Cytokinin Signaling.
    Plant Cell, 2015. 27(9): p. 2469-83
    [PMID:26307379]
  3. Zhang T, et al.
    The YUCCA-Auxin-WOX11 Module Controls Crown Root Development in Rice.
    Front Plant Sci, 2018. 9: p. 523
    [PMID:29740464]