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 GSBRNA2T00076691001
Common NameGSBRNA2T00076691001
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: 813aa    MW: 90773.1 Da    PI: 5.6423
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00076691001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox65.95.3e-21101156156
                          TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
             Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                          +++ +++t+ q++e+e+lF++n++p+ ++r++L+++lgL+ rqVk+WFqNrR+++k
  GSBRNA2T00076691001 101 KKRYHRHTDRQIQEMEALFKENPHPDDKQRQRLSHELGLKPRQVKFWFQNRRTQMK 156
                          688899***********************************************998 PP
2START149.33.5e-473125382206
                          HHHHHHHHHHHHHHHC-TT-EEEE........EXCCTTEEEEEEESSS..............SCEEEEEEEECCSCHHHHHHHHHCCCGG CS
                START   2 laeeaaqelvkkalaeepgWvkss........esengdevlqkfeeskv.............dsgealrasgvvdmvlallveellddke 70 
                          +a ++ qel k+ + eep+Wv             +n++e+++                    ++ ea++a +vv+m++ +lv+ +l+   
  GSBRNA2T00076691001 312 FAVSCVQELAKMCDTEEPLWVNKIsdkiggetLCLNEEEYMR------LfpwpmeknnnngdFRREASKANAVVIMNSITLVNAFLNAD- 394
                          67899******************9555544443344555555......155555677889999**************************. PP

                          CT-TT-S....EEEEEEEECTT.....EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE..TTS-EEEEEEEEE-TTS--.-TTSEE-EESS CS
                START  71 qWdetla....kaetlevissg.....galqlmvaelqalsplvp.RdfvfvRyirq.lgagdwvivdvSvdseqkppesssvvRaellp 149
                          +W+e++     +a+t++ issg     g l lm+aelq+lsplvp R+ +f+Ry +q ++ g w+ivd  +ds  ++++ +++    + p
  GSBRNA2T00076691001 395 KWSEMFCsivaRAKTVQIISSGvsgasGSLMLMYAELQVLSPLVPtREAYFLRYVEQnSENGNWAIVDFPIDSFHDQNSPHEYK---RKP 481
                          ******99999*************************************************************999998445555...5** PP

                          EEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
                START 150 Sgiliepksnghskvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                          Sg++i++++ng+skv wvehv++ +r++h+ +   vksg+a+ga++wv  l+rqce+
  GSBRNA2T00076691001 482 SGCIIQDMPNGYSKVKWVEHVEVVERHVHETFAEYVKSGMAFGASRWVDVLERQCER 538
                          *******************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466892.95E-2092159IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.607.8E-2295164IPR009057Homeodomain-like
PROSITE profilePS5007117.79998158IPR001356Homeobox domain
SMARTSM003892.1E-1999162IPR001356Homeobox domain
CDDcd000861.17E-19101159No hitNo description
PfamPF000461.7E-18101156IPR001356Homeobox domain
PROSITE patternPS000270133156IPR017970Homeobox, conserved site
PROSITE profilePS5084841.854302541IPR002913START domain
SuperFamilySSF559613.3E-28303540No hitNo description
CDDcd088751.20E-102306537No hitNo description
SMARTSM002345.4E-28311538IPR002913START domain
PfamPF018521.5E-39312538IPR002913START domain
SuperFamilySSF559612.75E-12568789No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048497Biological Processmaintenance of floral organ identity
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 813 aa     Download sequence    Send to blast
YCLLHRDQTH LKHSPATIQN PNFNFIPFNS FSSIIPKEEH GMMSMSMMMM MGDEAVEEMM  60
ENGSVGGSFG SGSEQAEDPK SGTEFDVNEL RDDEQPPPAK KKRYHRHTDR QIQEMEALFK  120
ENPHPDDKQR QRLSHELGLK PRQVKFWFQN RRTQMKAQQD RAENVMLRAD NDNLKLENSQ  180
LQAELRCLSC PSCGGPTVLG DIPFNELHIE NCRLREELDR LCCIASRYTD RPMQPMPPSQ  240
PLINPASELP HHQPSLELDI SAYAGNYPDH PCSDLMSLPP QDSACFFPTQ TINNSSNNML  300
LADEEKVMAM EFAVSCVQEL AKMCDTEEPL WVNKISDKIG GETLCLNEEE YMRLFPWPME  360
KNNNNGDFRR EASKANAVVI MNSITLVNAF LNADKWSEMF CSIVARAKTV QIISSGVSGA  420
SGSLMLMYAE LQVLSPLVPT REAYFLRYVE QNSENGNWAI VDFPIDSFHD QNSPHEYKRK  480
PSGCIIQDMP NGYSKVKWVE HVEVVERHVH ETFAEYVKSG MAFGASRWVD VLERQCERMA  540
SLMARNITDL GVIRSAEARR NMMRLSQRMM KTFCVNISTS YGQSWTALSE TAKDTVRITT  600
RKVCEPGQPT GVVLVAVSTT WLPFSHFKVF DLLRDQHHHS LLEVLFSGNS SHEVAHIANG  660
SHPGNCISLL RINVASNSWH NVELMLQESC IDNSGGLIVY STVGVESIQH VMNGEDPSNV  720
PFLPLGFSVV PVNPPGEVEG ISVNSIPPPS CLLTVGIQVL ASNVPTAKPN LSTVTTINNH  780
LCSIVNQITS VLSSTISPTI ASSAAAAKQD VI*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.157740.0microspore-derived embryo| seed
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in shoot apical meristem (SAM) with higher levels in L1 cells and the epidermal layer of young leaves. Expressed in the L1 of apical inflorescence meristems, early flower primordia, carpel and stamen filament epidermis, ovule primordia, nucellus and chalaze. {ECO:0000269|PubMed:16778018}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00076691001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0133941e-132AB013394.1 Arabidopsis thaliana genomic DNA, chromosome 5, P1 clone:MQD22.
GenBankCP0026881e-132CP002688.1 Arabidopsis thaliana chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013661958.10.0homeobox-leucine zipper protein HDG5
RefseqXP_013661960.10.0homeobox-leucine zipper protein HDG5
SwissprotQ9FJS20.0HDG5_ARATH; Homeobox-leucine zipper protein HDG5
TrEMBLA0A078I2W60.0A0A078I2W6_BRANA; BnaAnng07300D protein (Fragment)
STRINGBra017519.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM43562548
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G46880.10.0homeobox-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]
  3. Lung SC, et al.
    Arabidopsis ACYL-COA-BINDING PROTEIN1 interacts with STEROL C4-METHYL OXIDASE1-2 to modulate gene expression of homeodomain-leucine zipper IV transcription factors.
    New Phytol., 2018. 218(1): p. 183-200
    [PMID:29288621]