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 GSBRNA2T00050237001
Common NameGSBRNA2T00050237001
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family HD-ZIP
Protein Properties Length: 850aa    MW: 92957.4 Da    PI: 6.4327
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00050237001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.42.4e-181977357
                         --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
             Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                         k  ++t+eq+e+Le+++ ++++ps  +r++L +++    +++ +q+kvWFqNrR +ek+
  GSBRNA2T00050237001 19 KYVRYTPEQVEALERVYTECPKPSSLRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 77
                         5678*****************************************************97 PP
2START191.44.5e-601693772205
                          HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..E CS
                START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..g 89 
                          +aeea++e+++ka+ ++  Wv++  +++g++++ +++ s+++sg a+ra+g+v  +++  v+e+l+d++ W ++++ ++tl vi  g  g
  GSBRNA2T00050237001 169 IAEEALAEFLSKATGTAVDWVQMIGMKPGPDSIGIVSISRNCSGIAARACGLVSLEPM-KVAEILKDRQSWLRDCRCVDTLSVIPAGngG 257
                          799*******************************************************.8888888888*****************999* PP

                          EEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SS CS
                START  90 alqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgr 175
                          +++l++++++a++ l++ Rdf+++Ry+ +l++g++v++++S++s++  p+   sss+vRae++pSg+li+p+++g+s v++v+hvdl+++
  GSBRNA2T00050237001 258 TIELIYTQMYAPTILAAaRDFWTLRYSTCLEDGSYVVCERSLTSTTGGPNgppSSSFVRAEMRPSGFLIRPCDGGGSIVHIVDHVDLDAW 347
                          ***********************************************999999************************************* PP

                          XXHHHHHHHHHHHHHHHHHHHHHHTXXXXX CS
                START 176 lphwllrslvksglaegaktwvatlqrqce 205
                          ++++++r+l++s+ + ++k++va+l++ ++
  GSBRNA2T00050237001 348 SVPEVMRPLYESSKILAQKMTVAALRHVRQ 377
                          *************************98765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007115.3211478IPR001356Homeobox domain
SMARTSM003895.7E-151682IPR001356Homeobox domain
SuperFamilySSF466898.55E-171882IPR009057Homeodomain-like
CDDcd000864.08E-161979No hitNo description
PfamPF000466.4E-162077IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.602.0E-182177IPR009057Homeodomain-like
CDDcd146865.46E-671110No hitNo description
PROSITE profilePS5084827.446159387IPR002913START domain
CDDcd088752.14E-74163379No hitNo description
Gene3DG3DSA:3.30.530.202.4E-22167373IPR023393START-like domain
SuperFamilySSF559615.77E-36168380No hitNo description
SMARTSM002341.3E-62168378IPR002913START domain
PfamPF018523.2E-57169377IPR002913START domain
SuperFamilySSF559611.25E-5417499No hitNo description
SuperFamilySSF559611.25E-5531606No hitNo description
PfamPF086701.7E-49703848IPR013978MEKHLA
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009855Biological Processdetermination of bilateral symmetry
GO:0009944Biological Processpolarity specification of adaxial/abaxial axis
GO:0010072Biological Processprimary shoot apical meristem specification
GO:0080060Biological Processintegument development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008289Molecular Functionlipid binding
Sequence ? help Back to Top
Protein Sequence    Length: 850 aa     Download sequence    Send to blast
MMVHTMHRES PDKGLDSGKY VRYTPEQVEA LERVYTECPK PSSLRRQQLI RECPILSNIE  60
PKQIKVWFQN RRCREKQRKE AARLQTVNRK LNAMNKLLME ENDRLQKQVS HLVYENGHMK  120
HQLHTASGTT TDNSCESVVV SGQQHQQQNS NHPQHLQRDA NNPAGLLSIA EEALAEFLSK  180
ATGTAVDWVQ MIGMKPGPDS IGIVSISRNC SGIAARACGL VSLEPMKVAE ILKDRQSWLR  240
DCRCVDTLSV IPAGNGGTIE LIYTQMYAPT ILAAARDFWT LRYSTCLEDG SYVVCERSLT  300
STTGGPNGPP SSSFVRAEMR PSGFLIRPCD GGGSIVHIVD HVDLDAWSVP EVMRPLYESS  360
KILAQKMTVA ALRHVRQIAQ ETSGEVQYGG GRQPAVLRTF SQKLCRGFND AVNGFVDDGW  420
SPLGSNDGAE DISVMINLSP GKFGGPSHYG SSFLPSFGSG VLCAKASMLL ENVPPAVLVR  480
FLREHRSEWA DYGVDAYAAA SLRASPFAVP CARAGGFPSN QVILPLAQTV EHEEFLEVVR  540
LEGHAYSPED MGLARDMYLL QLCSGVDENV VGGCAQLVFA PIDESFADDA PLLPSGFRVI  600
PLEHKSTPNG ASANRTLDLA SALEGSTRQG SEADTNGCNF RSVVTIAFQF TFDNHTRDNV  660
ASMARQYVRS IVGSIQRVAL AIAPRPGSSI SPVSAPTSPE ALTLVRWISR SYRVHTGADL  720
FGSDSQTSGD TLLRQLWSHT DAILCCSLKT NASPVFTFAN QTGLDMLETT LVALQDIMLD  780
KTLDESGRKA LCSEFPKIMQ QGYAHLPAGV CASSMGRLVS YEQATVWKVL EDDESNHCLA  840
FMFVNWSFV*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed at the youngest stages of ovule development, predominantly to the adaxial side of the ovule primordium. Later, expression becomes restricted to a region in the distal chalaza. When the integuments initiate, expressed in the inner integument, with highest expression in the inner layer of the inner integument. Expressed in the vegetative shoot apical meristem (SAM) and initially throughout the presumptive cotyledons. At the globular stage, just before cotyledon outgrowth, expressed at high levels in cotyledon adaxial domains. Expression is lost from the SAM of torpedo stage embryos but is regained late in embryogenesis, extending to young primordia after germination, and becoming progressively restricted to the adaxial domain and the vasculature. Preferentially expressed in the adaxial domain of the developing leaf. Expressed throughout the plastochron 0 (P0) leaf primordium and expression increases in P1 to become preferentially localized to the adaxial leaf domain by the P2 stage (polar expression). {ECO:0000269|PubMed:11395776, ECO:0000269|PubMed:15328016}.
UniprotTISSUE SPECIFICITY: Expressed in the center of the meristem and on the adaxial side of the leaves. {ECO:0000269|PubMed:11395776}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the determination of adaxial-abaxial polarity in ovule primordium. Specifies adaxial leaf fates. {ECO:0000269|PubMed:11395776, ECO:0000269|PubMed:15328016, ECO:0000269|PubMed:15598805}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00050237001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by miR165 and miR166. {ECO:0000269|PubMed:14999284, ECO:0000269|PubMed:16033795, ECO:0000269|PubMed:17237362}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ4412910.0AJ441291.1 Arabidopsis thaliana mRNA for homeodomain-leucine zipper protein 14 (ATHB-14 gene).
GenBankAY0997910.0AY099791.1 Arabidopsis thaliana homeodomain transcription factor (At2g34710) mRNA, complete cds.
GenBankBT0003350.0BT000335.1 Arabidopsis thaliana homeodomain transcription factor (At2g34710) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009143747.10.0PREDICTED: homeobox-leucine zipper protein ATHB-14
SwissprotO042910.0ATB14_ARATH; Homeobox-leucine zipper protein ATHB-14
TrEMBLA0A078GYV70.0A0A078GYV7_BRANA; BnaA05g09120D protein
STRINGBra005398.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM42562653
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G34710.10.0HD-ZIP family protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  3. Jia X, et al.
    Functional plasticity of miR165/166 in plant development revealed by small tandem target mimic.
    Plant Sci., 2015. 233: p. 11-21
    [PMID:25711809]
  4. Müller CJ, et al.
    PHABULOSA Mediates an Auxin Signaling Loop to Regulate Vascular Patterning in Arabidopsis.
    Plant Physiol., 2016. 170(2): p. 956-70
    [PMID:26637548]
  5. Yamada T,Sasaki Y,Hashimoto K,Nakajima K,Gasser CS
    CORONA, PHABULOSA and PHAVOLUTA collaborate with BELL1 to confine WUSCHEL expression to the nucellus in Arabidopsis ovules.
    Development, 2016. 143(3): p. 422-6
    [PMID:26700684]
  6. Kim ES, et al.
    HAWAIIAN SKIRT regulates the quiescent center-independent meristem activity in Arabidopsis roots.
    Physiol Plant, 2016. 157(2): p. 221-33
    [PMID:26968317]
  7. Husbands AY,Aggarwal V,Ha T,Timmermans MC
    In Planta Single-Molecule Pull-Down Reveals Tetrameric Stoichiometry of HD-ZIPIII:LITTLE ZIPPER Complexes.
    Plant Cell, 2016. 28(8): p. 1783-94
    [PMID:27385814]
  8. Di Ruocco G, et al.
    Differential spatial distribution of miR165/6 determines variability in plant root anatomy.
    Development, 2018.
    [PMID:29158439]
  9. Wójcik AM,Nodine MD,Gaj MD
    miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 2024
    [PMID:29321785]
  10. Hashimoto K,Miyashima S,Sato-Nara K,Yamada T,Nakajima K
    Functionally Diversified Members of the MIR165/6 Gene Family Regulate Ovule Morphogenesis in Arabidopsis thaliana.
    Plant Cell Physiol., 2018. 59(5): p. 1017-1026
    [PMID:29462472]