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 GSBRNA2T00006479001
Common NameGSBRNA2T00006479001
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: 683aa    MW: 75891.3 Da    PI: 6.8421
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00006479001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox62.28e-202071556
                         SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
             Homeobox  5 ttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                         +++t++q+++Le+ F+++++p++++r +L+k+lgL+ rq+k+WFqNrR+++k
  GSBRNA2T00006479001 20 HRHTPHQIHRLESSFNECQHPDEKQRLQLSKELGLSPRQIKFWFQNRRTQKK 71
                         679**********************************************988 PP
2START148.55.8e-472124332206
                          HHHHHHHHHHHHHHHC-TT-EEEE...EXCCTTEEEEEEESSS........SCEEEEEEEECCSCHHHHHHHHHCCCGG...CT-TT-SE CS
                START   2 laeeaaqelvkkalaeepgWvkss...esengdevlqkfeeskv.......dsgealrasgvvdmvlallveellddke...qWdetlak 78 
                          +a +a++el+++ + +ep+W k     + +n d +   f++s +        + ea r sgvv+ ++++lv  l+d+ +    ++  +a+
  GSBRNA2T00006479001 212 IAVTAMEELLRLTQTNEPLWIKANgcrDVLNLDSYENMFPRSSGrggknhnLRKEATRSSGVVFTNAMTLVDMLMDSVKsseLFSSIIAS 301
                          6889**********************999999999999999988999999999*************************9999******** PP

                          EEEEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCE CS
                START  79 aetlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksngh 161
                           +tl+vissg       al+lm  elq+lsplvp R+f ++Ry++q + g+w+iv vS + +q+ +     +R+ ++pSg+li+++sng+
  GSBRNA2T00006479001 302 SKTLAVISSGlrgnhgDALHLMLEELQVLSPLVPtREFSVLRYCQQIEHGTWAIVNVSYELPQFITH----ARSYRFPSGCLIQDLSNGY 387
                          ****************************************************************995....88888************** PP

                          EEEEEEE-EE--SSXX.HHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
                START 162 skvtwvehvdlkgrlp.hwllrslvksglaegaktwvatlqrqcek 206
                          skv wvehv+++++ p h++++  v+ g+a+ga +w atlqr ce+
  GSBRNA2T00006479001 388 SKVSWVEHVEVEEQEPiHEMFKDNVREGIAFGAERWIATLQRMCER 433
                          ********************************************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-20767IPR009057Homeodomain-like
SuperFamilySSF466892.34E-19976IPR009057Homeodomain-like
PROSITE profilePS5007117.4911373IPR001356Homeobox domain
SMARTSM003891.2E-191477IPR001356Homeobox domain
CDDcd000861.08E-191674No hitNo description
PfamPF000462.0E-172071IPR001356Homeobox domain
PROSITE patternPS0002704871IPR017970Homeobox, conserved site
PROSITE profilePS5084847.783202436IPR002913START domain
SuperFamilySSF559613.85E-29203434No hitNo description
CDDcd088753.54E-94206432No hitNo description
SMARTSM002341.1E-33211433IPR002913START domain
PfamPF018521.2E-39212433IPR002913START domain
Gene3DG3DSA:3.30.530.201.3E-5266399IPR023393START-like domain
SuperFamilySSF559612.42E-18453672No 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: 683 aa     Download sequence    Send to blast
MEFLGDSSET DKKKMKKRFH RHTPHQIHRL ESSFNECQHP DEKQRLQLSK ELGLSPRQIK  60
FWFQNRRTQK KAQHERADNC ALKEENDRIR CENIAIREAI KHAICLNCGD APLHEDSYFD  120
EQKLRIENAH LREELEKVSS VAAQFMGRPF SHLPPLLNPM HVSPLEFFHS GPSLDFDLLP  180
GSSSSSMPVP PTLPSQPNLV LSDMDKSLMT NIAVTAMEEL LRLTQTNEPL WIKANGCRDV  240
LNLDSYENMF PRSSGRGGKN HNLRKEATRS SGVVFTNAMT LVDMLMDSVK SSELFSSIIA  300
SSKTLAVISS GLRGNHGDAL HLMLEELQVL SPLVPTREFS VLRYCQQIEH GTWAIVNVSY  360
ELPQFITHAR SYRFPSGCLI QDLSNGYSKV SWVEHVEVEE QEPIHEMFKD NVREGIAFGA  420
ERWIATLQRM CERFTALLEP ATSSRDLKGV IPLPEGKQSI MRLAQRMVSN FCLSVGTSNN  480
TRTPVFSGLD AFGIRVTSYK SQHEPNGMVL CAATSFWLPV SPQNVFNYLK DERTRPQWDV  540
LLNGNSVQEV AHIANGSHPG NCISVLRGFN ASSSQNNMLI LQESCVDSSG SLVVYTPADL  600
SALNMAMTGQ DTSYIPILPS GFAIKAEGGG GGGGSLITVG FQIMVSSLQS GKLNMESMET  660
VNNLISTTVH QIKTTLNSPS AA*
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
PlantRegMapGSBRNA2T00006479001
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_013613976.10.0PREDICTED: homeobox-leucine zipper protein HDG12
RefseqXP_013613977.10.0PREDICTED: homeobox-leucine zipper protein HDG12
RefseqXP_013723367.10.0homeobox-leucine zipper protein HDG12-like
RefseqXP_013723368.10.0homeobox-leucine zipper protein HDG12-like
RefseqXP_022558059.10.0homeobox-leucine zipper protein HDG12-like
SwissprotQ9LMT80.0HDG12_ARATH; Homeobox-leucine zipper protein HDG12
TrEMBLA0A078FXR00.0A0A078FXR0_BRANA; BnaC05g13860D protein
STRINGBo00831s050.10.0(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]