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 GSBRNA2T00050672001
Common NameGSBRNA2T00050672001
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: 74526.5 Da    PI: 6.777
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00050672001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox60.23.3e-194396356
                         --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
             Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                         k +++t++q++eLe++F+ +++p++++r eL +kl+L+ +q+k+WFqNrR+++k
  GSBRNA2T00050672001 43 KYRRHTSYQIQELESFFKVCPHPNEKQRLELGSKLSLEGKQIKFWFQNRRTQMK 96
                         56789**********************************************999 PP
2START168.93.4e-532084173205
                          HHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEEEEEECTT CS
                START   3 aeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetla....kaetlevissg 88 
                          a  a++e++++a+++ p+W+k s  + + ++++  + +       +r++g+v  ++ +lve+l+d++ qW e+++     a+t+evis+g
  GSBRNA2T00050672001 208 AAVAMDEVIRLAEVDNPLWTKCS--KSERDSMKHDQYTSI-FAGSSRETGLVLINSLTLVETLMDTN-QWAEMFEcivaVASTVEVISNG 293
                          56689******************..666666666655444.5567**********************.********************** PP

                          ......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE CS
                START  89 ......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwvehvd 171
                                galqlm+ae+q++splvp R + f+Ry++q+g+g w++vdvS d++++ +  +s+   ++lpSg++i++ +ng skvtw eh +
  GSBRNA2T00050672001 294 sggsrnGALQLMQAEFQVMSPLVPiRQVKFLRYCKQHGDGLWAVVDVSYDVNRESQDLKSFGGLKRLPSGCIIQDIGNGCSKVTWTEHSE 383
                          ******************************************************9989999999************************** PP

                          --SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXX CS
                START 172 lkgrlphwllrslvksglaegaktwvatlqrqce 205
                          ++g+++h l+++l++s++  ga +w+atlqr ce
  GSBRNA2T00050672001 384 YEGSHIHPLYQQLLGSSVGLGATKWLATLQRRCE 417
                          *********************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466894.09E-182498IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.602.3E-192598IPR009057Homeodomain-like
PROSITE profilePS5007116.1473898IPR001356Homeobox domain
SMARTSM003898.5E-1640102IPR001356Homeobox domain
PfamPF000465.7E-174396IPR001356Homeobox domain
CDDcd000862.15E-154398No hitNo description
PROSITE profilePS5084842.417197421IPR002913START domain
CDDcd088754.45E-100202417No hitNo description
SuperFamilySSF559611.28E-30203419No hitNo description
SMARTSM002341.6E-41206418IPR002913START domain
Gene3DG3DSA:3.30.530.201.4E-4207401IPR023393START-like domain
PfamPF018526.3E-47208418IPR002913START domain
SuperFamilySSF559616.04E-19445666No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008289Molecular Functionlipid binding
Sequence ? help Back to Top
Protein Sequence    Length: 674 aa     Download sequence    Send to blast
MNGDFDISKG DDEFESDSFE AMSGDDDDKH EQRPKKKKKK MSKYRRHTSY QIQELESFFK  60
VCPHPNEKQR LELGSKLSLE GKQIKFWFQN RRTQMKTQLE RHENAILRQE NEKLRVENGI  120
LKEAMRSPPT CNNCGGAATP GEVSHEQQQL RMENAKLKYE LDKLCALANR FIGGSISLEQ  180
PSNGGVASQD LSLGHGFTRG SSTFMDIAAV AMDEVIRLAE VDNPLWTKCS KSERDSMKHD  240
QYTSIFAGSS RETGLVLINS LTLVETLMDT NQWAEMFECI VAVASTVEVI SNGSGGSRNG  300
ALQLMQAEFQ VMSPLVPIRQ VKFLRYCKQH GDGLWAVVDV SYDVNRESQD LKSFGGLKRL  360
PSGCIIQDIG NGCSKVTWTE HSEYEGSHIH PLYQQLLGSS VGLGATKWLA TLQRRCESYT  420
TLSSSPDQTD LSLAGTKSTL TLAQRMRSNF YSGITASPIH KWEKLVAENV GQDTRILTRK  480
SLQPSGVVLS AATSMWLPVT QQRLFEFLCD GKCRNQWDIL CNGASMENML LIPQRQSEGR  540
CISLLQPAGK HQNESSMLIL QETWSDASGA LVVYAPVDVP SMNMVMSGGD SANVALLPSG  600
FSISPDGSSW SDQIDTNGRL VNHESKGCLL TVGFQILVNS VPTTKLNMES VQTVNNLIAC  660
TIHKIKAALS IPA*
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in cells around the base of leaf primordia, in the outermost 2 to 3 cell layers along the boundary between two leaf primordia. Expressed in lateral root primordia and tips, and in the epidermal boundaries of two cotyledons at heart-stage embryo. {ECO:0000269|PubMed:16778018}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that binds to the DNA sequence 5'-GCATTAAATGC-3'. {ECO:0000269|PubMed:16778018}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00050672001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0256031e-99AB025603.1 Arabidopsis thaliana genomic DNA, chromosome 5, BAC clone:F17P19.
GenBankCP0026881e-99CP002688.1 Arabidopsis thaliana chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013613235.10.0PREDICTED: homeobox-leucine zipper protein HDG7
SwissprotQ9LTK30.0HDG7_ARATH; Homeobox-leucine zipper protein HDG7
TrEMBLA0A078H2880.0A0A078H288_BRANA; BnaC09g28280D protein
STRINGBo9g104880.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM112827105
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G52170.10.0homeodomain GLABROUS 7
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]