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.001G075101.1.p
Common NameSb01g006790, SORBIDRAFT_01g006790
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 TALE
Protein Properties Length: 350aa    MW: 38713.6 Da    PI: 6.3538
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.001G075101.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox29.81.1e-092693042055
                           HHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
              Homeobox  20 eknrypsaeereeLAkklgLterqVkvWFqNrRake 55 
                           +k +yps++e+  LA+ +gL+++q+ +WF N+R ++
  Sobic.001G075101.1.p 269 YKWPYPSETEKMALAETTGLDQKQINNWFINQRKRH 304
                           4679*****************************885 PP
2ELK42.99.9e-15224245122
                   ELK   1 ELKhqLlrKYsgyLgsLkqEFs 22 
                           ELKhqLlrKY+gyLg+L+qEFs
  Sobic.001G075101.1.p 224 ELKHQLLRKYGGYLGGLRQEFS 245
                           9********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012555.4E-2089133IPR005540KNOX1
PfamPF037902.7E-2290130IPR005540KNOX1
SMARTSM012562.1E-26141192IPR005541KNOX2
PfamPF037918.4E-21147188IPR005541KNOX2
PfamPF037893.7E-11224245IPR005539ELK domain
PROSITE profilePS5121311.575224244IPR005539ELK domain
SMARTSM011884.2E-8224245IPR005539ELK domain
PROSITE profilePS5007113.054244307IPR001356Homeobox domain
SuperFamilySSF466891.33E-19245317IPR009057Homeodomain-like
SMARTSM003896.6E-12246311IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.601.2E-27249311IPR009057Homeodomain-like
CDDcd000863.28E-12256307No hitNo description
PfamPF059209.7E-17264303IPR008422Homeobox KN domain
PROSITE patternPS000270282305IPR017970Homeobox, 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: 350 aa     Download sequence    Send to blast
MDSFGDLGGG GGRSSSKAAS FLQLPLPAST SSAQQVFPPP DGRQHHSSRF ALQQLLADPS  60
AAQQHSHQKD AAAIVQGEMS SPPADGDADT IKAKIMSHPQ YSALLAAYLD CQKVGAPPDV  120
SDRLSAMAAK LGAQPGPSRW REPTTRPDPE LDQFMEAYCN MLVKFQEEMA RPIQEATEFF  180
KSVERQLQLG SISDSSNCEV AGSSEDEQDA SCPEDIDPCA EDKELKHQLL RKYGGYLGGL  240
RQEFSKRKKK GKLPKEARQK LLHWWELHYK WPYPSETEKM ALAETTGLDQ KQINNWFINQ  300
RKRHWKPASE DMPFAMMEGG FHVPQGTAAL YMDRPPPFMA DGGMYRLGS*
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00671PBMTransfer from GRMZM2G135447Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.001G075101.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU9663730.0EU966373.1 Zea mays clone 293957 homeobox protein rough sheath 1 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002466383.10.0homeobox protein rough sheath 1
SwissprotO650341e-113KNOSC_ORYSI; Homeobox protein knotted-1-like 12
SwissprotO804161e-113KNOSC_ORYSJ; Homeobox protein knotted-1-like 12
TrEMBLA0A1Z5S4S30.0A0A1Z5S4S3_SORBI; Uncharacterized protein
STRINGSb01g006790.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP40613873
Representative plantOGRP16717148
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G08150.14e-87KNOTTED-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]