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 Sof000654
Organism
Saccharum officinarum
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; Saccharinae; Saccharum; Saccharum officinarum complex
Family TALE
Protein Properties Length: 359aa    MW: 39733.4 Da    PI: 6.9207
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PUT-157a-Saccharum_officinarum-99302PU_unrefplantGDBView CDS
PUT-157a-Saccharum_officinarum-99304PU_refplantGDBView CDS
PUT-157a-Saccharum_officinarum-99305PU_unrefplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox27.36e-092783132055
                HHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
   Homeobox  20 eknrypsaeereeLAkklgLterqVkvWFqNrRake 55 
                +k +yps++e+  L++++gL+++q+ +WF N+R ++
  Sof000654 278 YKWPYPSETEKIVLSESTGLDQKQINNWFINQRKRH 313
                4679*****************************885 PP
2ELK37.84.1e-13233254122
        ELK   1 ELKhqLlrKYsgyLgsLkqEFs 22 
                ELK qLl+KYsgyL+sL+qEFs
  Sof000654 233 ELKYQLLKKYSGYLSSLRQEFS 254
                9********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012552.3E-2190134IPR005540KNOX1
PfamPF037902.6E-2191132IPR005540KNOX1
SMARTSM012563.9E-30137188IPR005541KNOX2
PfamPF037913.7E-24143186IPR005541KNOX2
PROSITE profilePS5121311.627233253IPR005539ELK domain
PfamPF037894.3E-10233254IPR005539ELK domain
SMARTSM011881.2E-7233254IPR005539ELK domain
PROSITE profilePS5007112.341253316IPR001356Homeobox domain
SuperFamilySSF466895.56E-19254327IPR009057Homeodomain-like
SMARTSM003893.3E-12255320IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.601.1E-26258317IPR009057Homeodomain-like
CDDcd000861.54E-11265317No hitNo description
PfamPF059203.1E-16273312IPR008422Homeobox KN domain
PROSITE patternPS000270291314IPR017970Homeobox, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 359 aa     Download sequence    Send to blast
MDQSFGNLGA GAGSSSGGSN SKAAAAAAVS SSSFLQLPLS TAAAASPAYY GSPLALLHHH  60
AAAGGPSSQQ QQQLPYAKHA SAEMSAAEAE AIKDKIVAHP QYSALLAAYL DCQKVGAPPD  120
VLERLTAMAA KLDARPPGRH EPRDPELDQF MEAYCNVLVK YREELTRPID EAMEFLKRVE  180
AQLDSISGGG SSSARLSLTD GKSEGVGSSE DDMDPSGREN DPPEIDPRAE DKELKYQLLK  240
KYSGYLSSLR QEFSKKKKKG KLPKEARQKL LHWWELHYKW PYPSETEKIV LSESTGLDQK  300
QINNWFINQR KRHWKPSEDM PFVMMEGFHP QNAAALYMDG PFHGRRYXPP RFMNYAVDW
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sof.20010.0crown| inflorescence| meristem| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the embryo at 4 days after pollination (DAP) in the ventral and basal part of the embryo including the initial of the shoot apical meristem (SAM). At 5 DAP, expressed at the ventral side of the embryo, but the expression within SAM is down-regulated. At 7 DAP, expression is restricted to the boundaries between the embryonic organs, between the scutellum and the coleoptile, the coleoptile and the second leaf primordium, the shoot apical meristem and the first leaf primordium, the first leaf primordium and the coleoptile, the coleoptile and the epiblast and at the tip of the epiblast, but not in the leaf primordia. {ECO:0000269|PubMed:10080693}.
UniprotDEVELOPMENTAL STAGE: Expressed in the embryo at 4 days after pollination (DAP) in the ventral and basal part of the embryo, including the initial of the shoot apical meristem (SAM). At 5 DAP, expressed at the ventral side of the embryo, but the expression within SAM is down-regulated. At 7 DAP, expression is restricted to the boundaries between the embryonic organs, between the scutellum and the coleoptile, the coleoptile and the second leaf primordium, the shoot apical meristem and the first leaf primordium, the first leaf primordium and the coleoptile, the coleoptile and the epiblast and at the tip of the epiblast, but not in the leaf primordia. {ECO:0000269|PubMed:10080693, ECO:0000269|PubMed:10095070, ECO:0000269|PubMed:9869405}.
UniprotTISSUE SPECIFICITY: Expressed in stems, rachis and inflorescence. {ECO:0000269|PubMed:9869405}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that may be involved in shoot formation during embryogenesis. {ECO:0000269|PubMed:10080693}.
UniProtProbable transcription factor that may be involved in shoot formation during embryogenesis. {ECO:0000269|PubMed:10080693, ECO:0000269|PubMed:9869405}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025803053.10.0homeobox protein rough sheath 1-like
SwissprotO650341e-167KNOSC_ORYSI; Homeobox protein knotted-1-like 12
SwissprotO804161e-167KNOSC_ORYSJ; Homeobox protein knotted-1-like 12
TrEMBLA0A2T7EKK80.0A0A2T7EKK8_9POAL; Uncharacterized protein
STRINGPavir.Bb00225.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G08150.13e-98KNOTTED-like from Arabidopsis thaliana
Publications ? help Back to Top
  1. Sato Y, et al.
    Loss-of-function mutations in the rice homeobox gene OSH15 affect the architecture of internodes resulting in dwarf plants.
    EMBO J., 1999. 18(4): p. 992-1002
    [PMID:10022841]
  2. Ito Y,Eiguchi M,Kurata N
    KNOX homeobox genes are sufficient in maintaining cultured cells in an undifferentiated state in rice.
    Genesis, 2001. 30(4): p. 231-8
    [PMID:11536429]
  3. Nagasaki H,Sakamoto T,Sato Y,Matsuoka M
    Functional analysis of the conserved domains of a rice KNOX homeodomain protein, OSH15.
    Plant Cell, 2001. 13(9): p. 2085-98
    [PMID:11549765]
  4. Postma-Haarsma AD, et al.
    Developmental regulation and downstream effects of the knox class homeobox genes Oskn2 and Oskn3 from rice.
    Plant Mol. Biol., 2002. 48(4): p. 423-41
    [PMID:11908517]
  5. Kuijt SJ, et al.
    Different subcellular localization and trafficking properties of KNOX class 1 homeodomain proteins from rice.
    Plant Mol. Biol., 2004. 55(6): p. 781-96
    [PMID:15604716]
  6. Yin H, et al.
    SUI-family genes encode phosphatidylserine synthases and regulate stem development in rice.
    Planta, 2013. 237(1): p. 15-27
    [PMID:22956125]