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 GSBRNA2T00139656001
Common NameGSBRNA2T00139656001, LOC106358592, LOC106387638
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: 686aa    MW: 76100.7 Da    PI: 6.9877
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00139656001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox61.11.7e-192172556
                         SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
             Homeobox  5 ttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                         +++t++q+++Le++F+++++p++++r +L+++lgL  rq+k+WFqNrR+++k
  GSBRNA2T00139656001 21 HRHTPHQIQRLESAFNECQHPDEKQRMQLSRELGLAPRQIKFWFQNRRTQKK 72
                         689**********************************************988 PP
2START152.24.6e-482054262206
                          HHHHHHHHHHHHHHHC-TT-EEEE...EXCCTTEEEEEEESSS........SCEEEEEEEECCSCHHHHHHHHHCCCGG...CT-TT-SE CS
                START   2 laeeaaqelvkkalaeepgWvkss...esengdevlqkfeeskv.......dsgealrasgvvdmvlallveellddke...qWdetlak 78 
                          +a +a++el+++ + +ep+W k     + +n   +   f+++ +        ++ea+r sgvv+ ++++lv  l+d+ +    +   +a+
  GSBRNA2T00139656001 205 IAVTAMEELIRLTQTNEPLWIKNDgarDVLNLGSYENMFPRASSrggknhnVRVEASRSSGVVFINAMTLVDMLMDSVKsaeLFPSVVAS 294
                          6889******************999996666666666666655566677778*************************999999******* PP

                          EEEEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCE CS
                START  79 aetlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksngh 161
                           +tl+v+ssg      +al+lm  elq+lsplvp R+f ++Ry++q + g+w+iv vS + +q+ +    + R  +lpSg+li+++sng+
  GSBRNA2T00139656001 295 SKTLAVVSSGlrgnhgEALHLMLEELQMLSPLVPtREFSVLRYCQQIEHGTWAIVNVSYELPQFIS----SSRPYRLPSGCLIQDMSNGY 380
                          ****************************************************************87....467777************** PP

                          EEEEEEE-EE--SSXX.HHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
                START 162 skvtwvehvdlkgrlp.hwllrslvksglaegaktwvatlqrqcek 206
                          +kvtwveh++ +++ p h++++  v+ gla+ga +w atlqr ce+
  GSBRNA2T00139656001 381 CKVTWVEHIEISEQEPiHEMFKDRVREGLAFGAERWIATLQRMCER 426
                          ********************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.2E-20568IPR009057Homeodomain-like
SuperFamilySSF466898.77E-19974IPR009057Homeodomain-like
PROSITE profilePS5007117.3291474IPR001356Homeobox domain
SMARTSM003891.1E-181578IPR001356Homeobox domain
CDDcd000862.76E-191675No hitNo description
PfamPF000464.1E-172172IPR001356Homeobox domain
PROSITE patternPS0002704972IPR017970Homeobox, conserved site
PROSITE profilePS5084847.489195429IPR002913START domain
SuperFamilySSF559615.36E-29196427No hitNo description
CDDcd088751.49E-101199425No hitNo description
SMARTSM002341.4E-35204426IPR002913START domain
PfamPF018523.7E-40205426IPR002913START domain
Gene3DG3DSA:3.30.530.203.0E-6258391IPR023393START-like domain
SuperFamilySSF559611.14E-18442646No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 686 aa     Download sequence    Send to blast
MEFLGDSSET DKKTMKKKRF HRHTPHQIQR LESAFNECQH PDEKQRMQLS RELGLAPRQI  60
KFWFQNRRTQ KKAQHERADN CALKEENDRI RCENIAIKEA LKHTICPTCG DAPSHEDSYF  120
DEQKLRIENA HLREELERVS SIAAKFMGRP LSHLPPLLNQ MPFHGGPSLD FDLIPGSCSS  180
MAAPTLPSQP NLVLSDIDKS VMTNIAVTAM EELIRLTQTN EPLWIKNDGA RDVLNLGSYE  240
NMFPRASSRG GKNHNVRVEA SRSSGVVFIN AMTLVDMLMD SVKSAELFPS VVASSKTLAV  300
VSSGLRGNHG EALHLMLEEL QMLSPLVPTR EFSVLRYCQQ IEHGTWAIVN VSYELPQFIS  360
SSRPYRLPSG CLIQDMSNGY CKVTWVEHIE ISEQEPIHEM FKDRVREGLA FGAERWIATL  420
QRMCERFTAL HEPATSSVIP SPEGKRSVMK LAQRMVNNFC LSVGTSNNTR SSTVVSGMNE  480
FGIRVTSYKS QHEPNGMVLC AATSFWLPVS PLIVFNFLKD ERTRPQWDVL LNGSSVQEVA  540
HIANGSHPGN CISILRGFNA SSSQNNMLIL QESCVDSSGS LVVYTPLDLP ALNMAMSGQD  600
TSYIPILPSG FAVSPDGSRN DQIPELKVEG RGSGGGGSLI TVGFQIMVSS LQSGKLNMES  660
METVNNLISS TVHHIKTTLN CPSTA*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During embryo development, expressed in all cells at the 4- and 16-cell embryo stages. Expression is restricted to the protoderm from the globular stage onward. {ECO:0000269|PubMed:25564655}.
UniprotTISSUE SPECIFICITY: Expressed in apical meristems and young epidermal tissue including trichomes and stipules. Expressed in lateral root tips, the L1 layer of apical inflorescence meristems and early flower primordia, carpel and stamen filament epidermis, stigma papillae, ovule primordia, nucellus and embryo. {ECO:0000269|PubMed:16778018}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that acts as negative regulator of trichome branching in association with HDG11 (PubMed:16778018). May regulate cell differentiation and proliferation during root and shoot meristem development (PubMed:25564655). Acts as positive regulator of SCL18/LAS expression (PubMed:25358340). {ECO:0000269|PubMed:16778018, ECO:0000269|PubMed:25358340, ECO:0000269|PubMed:25564655}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00139656001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013653874.10.0homeobox-leucine zipper protein HDG12-like
RefseqXP_013682996.10.0homeobox-leucine zipper protein HDG12-like
SwissprotQ9LMT80.0HDG12_ARATH; Homeobox-leucine zipper protein HDG12
TrEMBLA0A0D3DQ390.0A0A0D3DQ39_BRAOL; Uncharacterized protein
TrEMBLA0A3P6G9370.0A0A3P6G937_BRAOL; Uncharacterized protein
STRINGBo8g067530.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM30042665
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G17920.10.0homeodomain GLABROUS 12
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  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. Tian C, et al.
    An organ boundary-enriched gene regulatory network uncovers regulatory hierarchies underlying axillary meristem initiation.
    Mol. Syst. Biol., 2014. 10: p. 755
    [PMID:25358340]
  4. Horstman A, et al.
    AIL and HDG proteins act antagonistically to control cell proliferation.
    Development, 2015. 142(3): p. 454-64
    [PMID:25564655]