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 GSBRNA2T00128705001
Common NameGSBRNA2T00128705001
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: 824aa    MW: 91618.9 Da    PI: 5.5669
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00128705001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox65.28.7e-21112167156
                          TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
             Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                          +++ +++t+ q++e+e+lF++n++p+ ++r++L+++lgL+ rqVk+WFqNrR+++k
  GSBRNA2T00128705001 112 KKRYHRHTNRQIQEMEALFKQNPHPDDKQRQRLSHELGLKPRQVKFWFQNRRTQMK 167
                          688999***********************************************998 PP
2START139.82.7e-443215492206
                          HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEE.EEEESSS...............SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT- CS
                START   2 laeeaaqelvkkalaeepgWvkssesengdevl.qkfeeskv..............dsgealrasgvvdmvlallveellddkeqWdetl 76 
                          +a ++  el k+ + eep+W k  + ++g e l  ++ee k+              ++ ea++a +vv+m++ +lv  +l+   +W+e++
  GSBRNA2T00128705001 321 IAVSCVHELTKMCYTEEPLWIKKKSDKMGGEILcLNEEEYKSlfawtmenhnnkgdFRREASKANAVVIMNSITLVDAFLNAD-KWSEMF 409
                          7889999***************99666665544134444444788888899999*99**************************.****** PP

                          S....EEEEEEEECTT.....EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE..TTS-EEEEEEEEE-TTS--..-TTSEE-EESSEEEEE CS
                START  77 a....kaetlevissg.....galqlmvaelqalsplvp.RdfvfvRyirq.lgagdwvivdvSvdseqkppe.sssvvRaellpSgili 154
                               +a+t++ issg     g l lm+aelq+lsplvp R+ +f+Ry +q  + g w+ivd  +d+ q+ +  +++  +  + pSg++i
  GSBRNA2T00128705001 410 CsivaRAKTVQIISSGvsgasGSLLLMYAELQVLSPLVPtREAYFLRYVEQnVENGNWAIVDFPIDQIQPLSAnTPHEYK--RKPSGCII 497
                          99999**********************************************99***************999866444444..7******* PP

                          EEECTCEEEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
                START 155 epksnghskvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                          ++++ng+s+v wve+v++++r++h+++   vk+g+a+ga++w+  l+rqce+
  GSBRNA2T00128705001 498 QDMPNGYSQVKWVEQVEVNERHVHEIFAEYVKTGIAFGASRWLDVLERQCER 549
                          **************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466893.76E-20104170IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.604.5E-21106175IPR009057Homeodomain-like
PROSITE profilePS5007117.75109169IPR001356Homeobox domain
SMARTSM003897.3E-19110173IPR001356Homeobox domain
PfamPF000462.8E-18112167IPR001356Homeobox domain
CDDcd000862.16E-19112170No hitNo description
PROSITE patternPS000270144167IPR017970Homeobox, conserved site
PROSITE profilePS5084842.785311552IPR002913START domain
SuperFamilySSF559615.77E-28312551No hitNo description
CDDcd088752.70E-100315548No hitNo description
SMARTSM002342.0E-25320549IPR002913START domain
PfamPF018526.4E-37321549IPR002913START domain
SuperFamilySSF559611.26E-11582796No 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: 824 aa     Download sequence    Send to blast
MLTMGEENVM TTDNRFASPQ PPSSSPATIQ SPNFNFNPFN SFSSIIPKEE HGMMSMSMLM  60
MMGDGGVEEM MENGSAGGSF GSGSEQAEDP KSGNEFDVAE LQDEEQPPPA KKKRYHRHTN  120
RQIQEMEALF KQNPHPDDKQ RQRLSHELGL KPRQVKFWFQ NRRTQMKAQQ DRAENVMLRA  180
DNDNLKAENS HLQAELRCLS CPSCGGPTVL GDIPFNELHI ENCRLREELD RLCSIASRYT  240
GRPMESSQPM INPPLEVQHH QPSLELDMSV YAGNFQEQPC SDMMLLPPQD TACYLPVQTN  300
NNSNGYNMLL ADEEKVIAME IAVSCVHELT KMCYTEEPLW IKKKSDKMGG EILCLNEEEY  360
KSLFAWTMEN HNNKGDFRRE ASKANAVVIM NSITLVDAFL NADKWSEMFC SIVARAKTVQ  420
IISSGVSGAS GSLLLMYAEL QVLSPLVPTR EAYFLRYVEQ NVENGNWAIV DFPIDQIQPL  480
SANTPHEYKR KPSGCIIQDM PNGYSQVKWV EQVEVNERHV HEIFAEYVKT GIAFGASRWL  540
DVLERQCERM ASLMARNIII RSAEGRRNMM RLSQRMVKTF CVNISTSYGQ SWTALSETTK  600
DTVRITTRKV CEPGQPTGVV LAAVSTTCLP FSHAKVFDLL RHQHHHSLLE VLFSGSSPHE  660
VAHIANGSHP GNCISLLRIN VSSNSWHNVD LMLQESCIDN SGSLIVYSSV DVDYIQHAMN  720
GEDPSGIPLL PLGFSVVPVN YPDQVEGVSV NSHPLPSCLL TVGIQVLASN VPTAKPNLST  780
VTTINNHLSS IVNQITSVLS STIPPAIASS SAGDDAVAKQ EVI*
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
PlantRegMapGSBRNA2T00128705001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1892450.0AC189245.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB017K02, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013704013.10.0homeobox-leucine zipper protein HDG5-like
RefseqXP_013704014.10.0homeobox-leucine zipper protein HDG5-like
RefseqXP_022571207.10.0homeobox-leucine zipper protein HDG5-like
SwissprotQ9FJS20.0HDG5_ARATH; Homeobox-leucine zipper protein HDG5
TrEMBLA0A3P6F0W70.0A0A3P6F0W7_BRAOL; Uncharacterized protein
STRINGBo01466s010.10.0(Brassica oleracea)
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]