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 LOC_Os10g33960.3
Common NameHB2, HOX9, LOC4348919, Os10g0480200, OSJNBa0093B11.11
Organism
Oryza sativa subsp. japonica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
Family HD-ZIP
Protein Properties Length: 482aa    MW: 52357.6 Da    PI: 7.955
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os10g33960.3genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox58.89.1e-192987357
                      --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
          Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                      k  ++t+eq+e+Le++++++++ps ++r++L + +    +++ +q+kvWFqNrR ++k+
  LOC_Os10g33960.3 29 KYVRYTPEQVEALERVYAECPKPSSSRRQQLLRDCpilaNIEPKQIKVWFQNRRCRDKQ 87
                      5678****************************************************996 PP
2START160.99.9e-511673742204
                       HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..EEEE CS
             START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..galq 92 
                       +aee+++e+++ka+ ++  Wv ++ +++g+++  +++ s++++g a+ra+g+v  ++++ ve+l d++  W +++++ e+      g  g+++
  LOC_Os10g33960.3 167 IAEETLTEFLSKATGTAVDWVPMPGMKPGPDSFGIVAVSHGCRGVAARACGLVNLEPTKIVEILKDRP-SWFRDCRSLEVFTMFPAGngGTIE 258
                       7899******************************************************9999999999.***********999999999**** PP

                       EEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHH CS
             START  93 lmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwll 181
                       l +++++a+++lvp Rdf+++Ry+ ++++g++v++++S++     p+    +++vRae+lpSg+l++p+++g+s v++v+h dl++++++++l
  LOC_Os10g33960.3 259 LVYMQMYAPTTLVPaRDFWTLRYTTTMEDGSLVVCERSLSGSGGGPStasAQQFVRAEMLPSGYLVRPCEGGGSIVHIVDHLDLEAWSVPEVL 351
                       ****************************************9999998888899**************************************** PP

                       HHHHHHHHHHHHHHHHHHTXXXX CS
             START 182 rslvksglaegaktwvatlqrqc 204
                       r+l++s+++ ++k+++a+l++ +
  LOC_Os10g33960.3 352 RPLYESSRVVAQKMTTAALRHIR 374
                       *******************9865 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.609.7E-19984IPR009057Homeodomain-like
PROSITE profilePS5007115.4352488IPR001356Homeobox domain
SMARTSM003891.1E-152692IPR001356Homeobox domain
SuperFamilySSF466891.67E-162892IPR009057Homeodomain-like
CDDcd000863.07E-162989No hitNo description
PfamPF000462.1E-163087IPR001356Homeobox domain
CDDcd146862.19E-681120No hitNo description
Gene3DG3DSA:1.20.5.1702.2E-485135No hitNo description
PROSITE profilePS5084827.397157385IPR002913START domain
CDDcd088751.21E-75161377No hitNo description
SMARTSM002343.5E-37166376IPR002913START domain
Gene3DG3DSA:3.30.530.204.4E-22166352IPR023393START-like domain
SuperFamilySSF559614.81E-37167378No hitNo description
PfamPF018521.2E-48167374IPR002913START domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009855Biological Processdetermination of bilateral symmetry
GO:0009944Biological Processpolarity specification of adaxial/abaxial axis
GO:0009956Biological Processradial pattern formation
GO:0010014Biological Processmeristem initiation
GO:0010051Biological Processxylem and phloem pattern formation
GO:0010089Biological Processxylem development
GO:0030154Biological Processcell differentiation
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009037anatomylemma
PO:0001047developmental stagelemma development stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 482 aa     Download sequence    Send to blast
MAAAVAMRSG SGSDGGGGGY DKAGMDSGKY VRYTPEQVEA LERVYAECPK PSSSRRQQLL  60
RDCPILANIE PKQIKVWFQN RRCRDKQRKE ASRLQAVNRK LTAMNKLLME ENERLQKQVS  120
QLVHENAYMK QQLQNPSLGN DTSCESNVTT PQNPLRDASN PSGLLTIAEE TLTEFLSKAT  180
GTAVDWVPMP GMKPGPDSFG IVAVSHGCRG VAARACGLVN LEPTKIVEIL KDRPSWFRDC  240
RSLEVFTMFP AGNGGTIELV YMQMYAPTTL VPARDFWTLR YTTTMEDGSL VVCERSLSGS  300
GGGPSTASAQ QFVRAEMLPS GYLVRPCEGG GSIVHIVDHL DLEAWSVPEV LRPLYESSRV  360
VAQKMTTAAL RHIRQIAQET SGEVVYALGR QPAVLRTFSQ RLSRGFNDAI SGFNDDGWSV  420
MGGDGIEDVI IACNAKKVRN TSTSANAFVT PGGVICAKAS MLLQVSCPTC SFGSIFEGTS  480
F*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.463120.0callus| flower| leaf| panicle| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329878120.0
Expression AtlasQ9AV49-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedlings, roots, stems, leaf sheaths and blades and panicles. {ECO:0000269|PubMed:17999151}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os10g33960.3
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by miR166 in the shoot apicam meristem (SAM) region of devoloping embryo. {ECO:0000269|PubMed:17804793}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs10g33960
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1028300.0AK102830.1 Oryza sativa Japonica Group cDNA clone:J033109G06, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015614901.10.0homeobox-leucine zipper protein HOX9
SwissprotQ9AV490.0HOX9_ORYSJ; Homeobox-leucine zipper protein HOX9
TrEMBLA0A0E0R0G10.0A0A0E0R0G1_ORYRU; Uncharacterized protein
STRINGORUFI10G14170.10.0(Oryza rufipogon)
STRINGOS10T0480200-010.0(Oryza sativa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60690.10.0HD-ZIP family protein
Publications ? help Back to Top
  1. Rice Chromosome 10 Sequencing Consortium
    In-depth view of structure, activity, and evolution of rice chromosome 10.
    Science, 2003. 300(5625): p. 1566-9
    [PMID:12791992]
  2. 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]
  3. Nagasaki H, et al.
    The small interfering RNA production pathway is required for shoot meristem initiation in rice.
    Proc. Natl. Acad. Sci. U.S.A., 2007. 104(37): p. 14867-71
    [PMID:17804793]
  4. Agalou A, et al.
    A genome-wide survey of HD-Zip genes in rice and analysis of drought-responsive family members.
    Plant Mol. Biol., 2008. 66(1-2): p. 87-103
    [PMID:17999151]