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 Pavir.1KG443000.4.p
Organism
Panicum virgatum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family TALE
Protein Properties Length: 302aa    MW: 33254.3 Da    PI: 6.7868
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1KG443000.4.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox21.53.9e-072282582555
                          --HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
             Homeobox  25 psaeereeLAkklgLterqVkvWFqNrRake 55 
                          p ++e+  LA+ +gL+++q+ +WF N+R ++
  Pavir.1KG443000.4.p 228 PLETEKLALAETTGLDQKQINNWFINQRKRH 258
                          66788999********************885 PP
2ELK43.28.2e-15173194122
                  ELK   1 ELKhqLlrKYsgyLgsLkqEFs 22 
                          ELKhqLlrKY+gyLg+L+qEFs
  Pavir.1KG443000.4.p 173 ELKHQLLRKYGGYLGGLRQEFS 194
                          9********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012552.3E-681125IPR005540KNOX1
PfamPF037909.4E-1282107IPR005540KNOX1
SMARTSM012561.2E-1391142IPR005541KNOX2
PfamPF037911.9E-14106141IPR005541KNOX2
PROSITE profilePS5121311.575173193IPR005539ELK domain
SMARTSM011884.2E-8173194IPR005539ELK domain
PfamPF037893.1E-11173194IPR005539ELK domain
PROSITE profilePS5007110.77193261IPR001356Homeobox domain
SuperFamilySSF466896.84E-16194270IPR009057Homeodomain-like
SMARTSM003891.1E-7195265IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.605.9E-25198265IPR009057Homeodomain-like
CDDcd000866.82E-10205261No hitNo description
PfamPF059202.4E-12213257IPR008422Homeobox KN domain
PROSITE patternPS000270236259IPR017970Homeobox, 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: 302 aa     Download sequence    Send to blast
MDGFRDLGGG GGSSASKASS FLQLPLAASS SAQGFPSPDG HHHSSRLALQ QLLADPSGSQ  60
SSHQMDGAAD LRREISPVDA ETIKAKIMSH PQYSALVAAY LDCRKEAYCN MLVKYQEELA  120
RPIQEAAEFF KSVERQLDSI TDSNNCEGAG SSEDEQQDTS CPEEIDPCAE DKELKHQLLR  180
KYGGYLGGLR QEFSKRKKKG KLPKEARQKL LRWWELHCKW PYPSVRPPLE TEKLALAETT  240
GLDQKQINNW FINQRKRHWK PASEDMPFAM VEAAGGFHAP QQGAAAAAAL YVADGMYRLG  300
S*
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.1KG443000.4.p
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025795146.11e-165homeobox protein knotted-1-like 12 isoform X3
SwissprotO650343e-86KNOSC_ORYSI; Homeobox protein knotted-1-like 12
SwissprotO804163e-86KNOSC_ORYSJ; Homeobox protein knotted-1-like 12
TrEMBLA0A2S3IHT31e-173A0A2S3IHT3_9POAL; Uncharacterized protein
STRINGPavir.J02443.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G08150.13e-61KNOTTED-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]