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 GSBRNA2T00102965001
Common NameGSBRNA2T00102965001
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: 674aa    MW: 74778.1 Da    PI: 6.8403
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00102965001genomeGenoscopeView 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
  GSBRNA2T00102965001 21 HRHTPHQIQRLESAFNECQHPDEKQRMQLSRELGLAPRQIKFWFQNRRTQKK 72
                         689**********************************************988 PP
2START147.99.5e-472064272206
                          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 sg+v+ ++ +lv  l+d+ +    +   +a+
  GSBRNA2T00102965001 206 VAVTAMEELIRLTQTNEPLWIKNDgarDVLNLESYENMFPRASSrggknhnVRVEASRSSGIVFINAITLVDMLMDSDKsaeLFPSVVAS 295
                          7899******************999997777777777776666677888989************************9999999******* 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  ++pSg+li+++sng+
  GSBRNA2T00102965001 296 SKTLAVVSSGlrgnhgDALHLMLEELQVLSPLVPtREFSVLRYCQQIEHGTWAIVNVSYELPQFIS-H---SRPYRFPSGCLIQDMSNGY 381
                          ****************************************************************98.4...55666************** PP

                          EEEEEEE-EE--SSXX.HHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
                START 162 skvtwvehvdlkgrlp.hwllrslvksglaegaktwvatlqrqcek 206
                          +kvtwvehv+ +++ p h++++  v+ gla+ga +w atlqr ce+
  GSBRNA2T00102965001 382 CKVTWVEHVEISEQEPiHEMFKDSVREGLAFGAERWIATLQRMCER 427
                          ********************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.1E-20568IPR009057Homeodomain-like
SuperFamilySSF466898.77E-19974IPR009057Homeodomain-like
PROSITE profilePS5007117.3291474IPR001356Homeobox domain
SMARTSM003891.1E-181578IPR001356Homeobox domain
CDDcd000862.01E-191675No hitNo description
PfamPF000464.0E-172172IPR001356Homeobox domain
PROSITE patternPS0002704972IPR017970Homeobox, conserved site
PROSITE profilePS5084848.715196430IPR002913START domain
SuperFamilySSF559612.06E-30197429No hitNo description
CDDcd088759.00E-103200426No hitNo description
SMARTSM002349.4E-33205427IPR002913START domain
PfamPF018525.2E-39206427IPR002913START domain
Gene3DG3DSA:3.30.530.205.6E-6259394IPR023393START-like domain
SuperFamilySSF559611.14E-20443654No 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: 674 aa     Download sequence    Send to blast
MEFLGDSSET DKKTMKKKRF HRHTPHQIQR LESAFNECQH PDEKQRMQLS RELGLAPRQI  60
KFWFQNRRTQ KKAQHERADN CALKEENDRI RCENIAIREA LKHTICPTCG DAPSHEDSYF  120
DEQKLRIENA HLREELERVS SIAAKFMGRP LSHLPPLLNQ MPFHSGGPSL DFDLIPGSGS  180
SMAVPTLPSQ PNLVLSDIDK SVMTNVAVTA MEELIRLTQT NEPLWIKNDG ARDVLNLESY  240
ENMFPRASSR GGKNHNVRVE ASRSSGIVFI NAITLVDMLM DSDKSAELFP SVVASSKTLA  300
VVSSGLRGNH GDALHLMLEE LQVLSPLVPT REFSVLRYCQ QIEHGTWAIV NVSYELPQFI  360
SHSRPYRFPS GCLIQDMSNG YCKVTWVEHV EISEQEPIHE MFKDSVREGL AFGAERWIAT  420
LQRMCERFAA LMEPATSSMI PSPEGKRSIM KLAQRMVSNF CLSVGTSNNT RSTVVSGMNE  480
FGIRVTSYKS HHEPNGMVLC AATSFWLPVS PLIVFNFLKD ERTRPQWDVL LNGSSVQEVA  540
HIANGSHPGN CISVLRGFNA SSSQNNMLIL QESCVDSSGS LVVYTPLDLP ALNMAMSGQD  600
TSYIPILPSG FAISPDGSRS SGGGGSLITV GFQIMVSSLQ SGKLNMESME TVNNLISSTV  660
HHIKTTLNCP STA*
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
PlantRegMapGSBRNA2T00102965001
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_013690958.10.0homeobox-leucine zipper protein HDG12-like
SwissprotQ9LMT80.0HDG12_ARATH; Homeobox-leucine zipper protein HDG12
TrEMBLA0A3P6C9K30.0A0A3P6C9K3_BRACM; Uncharacterized protein
STRINGBra016578.1-P0.0(Brassica rapa)
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]