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 GSBRNA2T00143159001
Common NameGSBRNA2T00143159001, LOC106357284
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: 706aa    MW: 79529.2 Da    PI: 6.6066
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00143159001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.62.2e-182879556
                         SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
             Homeobox  5 ttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                         ++++ +q+++Le++F+++++p+ ++r +L ++l+L+ +q+k+WFqN+R++ k
  GSBRNA2T00143159001 28 HRHSVHQIQRLEAYFKECPHPDDTQRHKLGEELKLKPKQIKFWFQNKRTQAK 79
                         57899********************************************988 PP
2START130.32.2e-412244424206
                          HHHHHHHHHHHHHC-TT-EEEE.......EXCCTTEEEEEEESSS...SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEE CS
                START   4 eeaaqelvkkalaeepgWvkss.......esengdevlqkfeeskv..dsgealrasgvvdmvlallveellddkeqWdetla....kae 80 
                            a +e ++++  eep+W kss       ++en++++ ++++  k+   ++e +++++vv+m++ +lv  ++d+  +W + +     +a+
  GSBRNA2T00143159001 224 VNAVTEIIRLIHIEEPMWIKSSiddrlviDQENYEKSFTNISHLKSpsARIESSKDVVVVPMDARNLVDMFFDTE-KWARIFStivnEAK 312
                          6788999**********************************88888999**************************.**999999999999 PP

                          EEEEECTT.....EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEE CS
                START  81 tlevissg.....galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskv 164
                          t+ v++s      ++ qlm+ +l  lsplvp R+f ++R+++q +++ wvi+dvS  + +   e   +  + ++pSg+li+ ++ng skv
  GSBRNA2T00143159001 313 TIHVLESMdtqrqNFSQLMYEQLHILSPLVPpREFIILRCCQQIEDDLWVIADVSCHHVNIDFE---SPTCSKRPSGCLIQALPNGLSKV 399
                          99998887788**********************************************9998764...566888***************** PP

                          EEEE-EE--SSXX.HHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
                START 165 twvehvdlkgrlp.hwllrslvksglaegaktwvatlqrqcek 206
                          tw+ehv++++++  h ++r l+  g   ga++w+ tl+r ce+
  GSBRNA2T00143159001 400 TWMEHVEVNEKVRtHRIYRDLLCGGFGYGARRWTVTLERMCER 442
                          ************99***************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.88E-16681IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.609.5E-181083IPR009057Homeodomain-like
PROSITE profilePS5007115.4832181IPR001356Homeobox domain
SMARTSM003891.3E-142385IPR001356Homeobox domain
PfamPF000467.7E-162879IPR001356Homeobox domain
CDDcd000867.05E-152882No hitNo description
PROSITE profilePS5084839.452212445IPR002913START domain
SuperFamilySSF559612.88E-29213443No hitNo description
CDDcd088759.95E-93216441No hitNo description
SMARTSM002345.7E-26221442IPR002913START domain
PfamPF018523.4E-34224442IPR002913START domain
Gene3DG3DSA:3.30.530.203.9E-9263408IPR023393START-like domain
SuperFamilySSF559611.35E-10465669No 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: 706 aa     Download sequence    Send to blast
MDSNHDSSSS NGLETSMSTT NRDNKIYHRH SVHQIQRLEA YFKECPHPDD TQRHKLGEEL  60
KLKPKQIKFW FQNKRTQAKA QSEKVFNASL RAENIRIRRE NEVIQEALKT VTCPPCGGPR  120
PGKEERKLYL QKMRAHNAYL KRQLEQISDF VNNNGGHSIP SVNSLASTSS NPHFSYGTSS  180
NRPLEPPSLE REQYTHEHIN NAQPTQHFQP LSQMEKMMMS QTMVNAVTEI IRLIHIEEPM  240
WIKSSIDDRL VIDQENYEKS FTNISHLKSP SARIESSKDV VVVPMDARNL VDMFFDTEKW  300
ARIFSTIVNE AKTIHVLESM DTQRQNFSQL MYEQLHILSP LVPPREFIIL RCCQQIEDDL  360
WVIADVSCHH VNIDFESPTC SKRPSGCLIQ ALPNGLSKVT WMEHVEVNEK VRTHRIYRDL  420
LCGGFGYGAR RWTVTLERMC ERLHLSSISV FPTTDFAGVV ETIEGRRSVM NLGERMLKNF  480
AWILKMSGNY DFSQLSETNS SGVRVSVRVN SEAGQPTGLI VCAASSICLP LSPLEVYNFL  540
TNLEIRHQWD VLCHGYPAAE VAGFATGTDD KNRVNILQTA STAEDADMMI IQDSFRDALG  600
GMVVYAPVDL NTASAAVSGQ VNPSGIPILP SGFIISRDGH HFTSPELEDG SDYSKSLLTV  660
AFQILVSGPT LSGDLQIEES TTTVNTLITS TLQRIKVMLN CNEGK*
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in anthers with highest levels in the tapetum and pollen grains, and chalazal end of the embryo sac. {ECO:0000269|PubMed:16778018}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that binds to the DNA sequence 5'-GCATTAAATGCGCA-3'. {ECO:0000269|PubMed:16778018}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00143159001
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_013652421.10.0homeobox-leucine zipper protein HDG9 isoform X2
SwissprotQ9FFI00.0HDG9_ARATH; Homeobox-leucine zipper protein HDG9
TrEMBLA0A398A6U70.0A0A398A6U7_BRACM; Uncharacterized protein
STRINGBra023611.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM84681531
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G17320.10.0homeodomain GLABROUS 9
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]