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 GSBRNA2T00006410001
Common NameGSBRNA2T00006410001
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: 728aa    MW: 81063.9 Da    PI: 6.5928
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00006410001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox642.2e-2071126156
                          TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
             Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                          r++ +++tk+q++eLe++F+++++p+ ++r+eL+++lgL+  q+k+WFqN+R++ k
  GSBRNA2T00006410001  71 RKRYHRHTKHQIQELENFFKECPHPDDTQRKELSRQLGLDHHQIKFWFQNKRTQIK 126
                          789999**********************************************9988 PP
2START162.62.9e-512544732206
                          HHHHHHHHHHHHHHHC-TT-EEEE....EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....E CS
                START   2 laeeaaqelvkkalaeepgWvkss....esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetla....k 78 
                          lae a++el+++a ++ep+W   +      +n  e++++f  + +      ++ea++a+ + +m++ + v++l+d++  W++++a    +
  GSBRNA2T00006410001 254 LAELAMKELMAMARLDEPLWDIGAngtsLALNLNEYTRIFRNGLGpilngLRTEASKATSIAFMNHLDIVQSLMDVN-LWSNMFArmvaR 342
                          77889***************9999888778999*******76665********************************.******999999 PP

                          EEEEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCE CS
                START  79 aetlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksngh 161
                          a+ +++i +g      ga +lm+ae+q+lsp+v+ R+ +fvR+++q+g+g w++vdvS+d+  ++ e     +++++pSg+li++ +ng 
  GSBRNA2T00006410001 343 AMSHDAILTGvqgnfdGAFHLMTAEYQVLSPVVStRECYFVRHCKQQGDGIWAVVDVSIDHLFPNLE----LKCRRRPSGCLIQQIENGF 428
                          ***************************************************************9997....99999************** PP

                          EEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
                START 162 skvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                          +kvtwvehv++++r +h l++sl++sg+a  a +wv+tl+rqce+
  GSBRNA2T00006410001 429 CKVTWVEHVEVDDREVHPLYKSLISSGQALSAERWVETLERQCER 473
                          *******************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.606.4E-2249126IPR009057Homeodomain-like
SuperFamilySSF466893.22E-2057129IPR009057Homeodomain-like
PROSITE profilePS5007117.10368128IPR001356Homeobox domain
SMARTSM003891.1E-1869132IPR001356Homeobox domain
CDDcd000867.20E-1971129No hitNo description
PfamPF000465.4E-1871126IPR001356Homeobox domain
PROSITE patternPS000270103126IPR017970Homeobox, conserved site
PROSITE profilePS5084838.056244476IPR002913START domain
SuperFamilySSF559611.1E-28246475No hitNo description
CDDcd088753.34E-101248472No hitNo description
SMARTSM002346.6E-40253473IPR002913START domain
PfamPF018522.1E-43254473IPR002913START domain
Gene3DG3DSA:3.30.530.203.7E-4361442IPR023393START-like domain
SuperFamilySSF559611.06E-13498689No 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: 728 aa     Download sequence    Send to blast
MSQPNMVPVE MNNNVGDGDN NNNNNGNNIT TTNNDMNGGI VLGDEEIDSA NTSENQEDGS  60
DHQDPARPSK RKRYHRHTKH QIQELENFFK ECPHPDDTQR KELSRQLGLD HHQIKFWFQN  120
KRTQIKNHQE RHENSQLRAE NDRLRAENHQ CRASIAKAIC HRCGGKTAIG EMSFEEHHLL  180
LENTKLAEEI RQLSLVMPKC TGKPVMNYTL TPPAPARPLE EIASNRREVY KSIGNLPGSA  240
LRVKDVDKPL IIELAELAMK ELMAMARLDE PLWDIGANGT SLALNLNEYT RIFRNGLGPI  300
LNGLRTEASK ATSIAFMNHL DIVQSLMDVN LWSNMFARMV ARAMSHDAIL TGVQGNFDGA  360
FHLMTAEYQV LSPVVSTREC YFVRHCKQQG DGIWAVVDVS IDHLFPNLEL KCRRRPSGCL  420
IQQIENGFCK VTWVEHVEVD DREVHPLYKS LISSGQALSA ERWVETLERQ CERLAYIMSP  480
NVPSIEPDGL IMITNNAKQS LLKIAERMTR SFLSGVATSN GDIWFGLSGN GGNTVRAMTR  540
KSLNDPGRPV GVILYASTSF WLPVPPKTVF DFLRDANNRT NWDVITTGGE GLQLISQIGN  600
GRDSRNCVSL LRTPNTSQKK MMMIQETSTD PTASFVIYAP LDVTLTENVL MGGDPGNVSL  660
LPMGFAILPD GTAQPGREGG SLVSTAFQVL AEKDPSTMLS FSSLATTENL ILTTANKIRA  720
YFSQQTV*
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in hairless cell files of the hypocotyl epidermis. Expressed in shoot apical meristem (SAM) with higher levels in L1 cells and the epidermal layer of young leaves. Expressed in primary root tips, in the L1 of apical inflorescence meristems, early flower primordia, carpel epidermis, ovule primordia, nucellus, chalaze and seed coat. {ECO:0000269|PubMed:16778018}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00006410001
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_013747219.10.0homeobox-leucine zipper protein HDG2-like
SwissprotQ94C370.0HDG2_ARATH; Homeobox-leucine zipper protein HDG2
TrEMBLA0A078G0Z40.0A0A078G0Z4_BRANA; BnaA04g18690D protein
STRINGBra021779.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM49128149
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G05230.30.0homeodomain GLABROUS 2
Publications ? help Back to Top
  1. 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]