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 GSBRNA2T00151602001
Common NameGSBRNA2T00151602001
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: 717aa    MW: 78917.1 Da    PI: 5.8892
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00151602001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox61.31.5e-1963118156
                          TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
             Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                          +++ +++t+ q++eLe++F+++++p+ ++r+eL++ lgL+  q+k+WFqN+R+++k
  GSBRNA2T00151602001  63 KKRYHRHTQRQIQELESFFKECPHPDDKQRKELSRDLGLEPLQIKFWFQNKRTQMK 118
                          688999***********************************************998 PP
2START2207.5e-692384571206
                          HHHHHHHHHHHHHHHHC-TT-EEEE...EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....E CS
                START   1 elaeeaaqelvkkalaeepgWvkss...esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetla....k 78 
                          ela +a++elv++a++++p+Wv+     e++n++e+ ++f+++ +      ++ea+r+s+vv+m++ +lve+l+d++ qW+  +     +
  GSBRNA2T00151602001 238 ELAVAAMEELVRMAQVGDPLWVSTDnsnEILNEEEYFRTFPRGIGpkplgLRSEASRESAVVIMNHINLVEILMDVN-QWSCVFSgivsR 326
                          57899******************99999**************999********************************.************ PP

                          EEEEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCE CS
                START  79 aetlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksngh 161
                          a tlev+s+g      galq+m+ae+q++splvp R+ +fvRy++q+++g+w++vdvS+ds +++p    + R +++pSg+li++++ng+
  GSBRNA2T00151602001 327 ALTLEVLSTGvagnynGALQVMTAEFQVPSPLVPtRENYFVRYCKQHSDGSWAVVDVSLDSLRPNP----ISRTRRRPSGCLIQELPNGY 412
                          *****************************************************************9....69999*************** PP

                          EEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
                START 162 skvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                          skvtwveh+++++r++h ++++lv+sgla+ga++wv+tl+rqce+
  GSBRNA2T00151602001 413 SKVTWVEHMEVDDRSVHTMYKPLVHSGLAFGARRWVSTLERQCER 457
                          *******************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.2E-2344118IPR009057Homeodomain-like
SuperFamilySSF466891.42E-1850120IPR009057Homeodomain-like
PROSITE profilePS5007116.95760120IPR001356Homeobox domain
SMARTSM003893.7E-1861124IPR001356Homeobox domain
PfamPF000463.5E-1763118IPR001356Homeobox domain
CDDcd000862.22E-1863121No hitNo description
PROSITE patternPS00027095118IPR017970Homeobox, conserved site
PROSITE profilePS5084845.725229460IPR002913START domain
SuperFamilySSF559617.28E-37231459No hitNo description
CDDcd088753.09E-126233456No hitNo description
SMARTSM002342.1E-76238457IPR002913START domain
PfamPF018528.2E-58239457IPR002913START domain
Gene3DG3DSA:3.30.530.209.5E-6335451IPR023393START-like domain
SuperFamilySSF559617.94E-25477704No 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: 717 aa     Download sequence    Send to blast
MYHPNMFESH HMFDMTTKST SDNDFGITGS REDDFETKSG TEVTTENPSG EELQDPNQRP  60
NKKKRYHRHT QRQIQELESF FKECPHPDDK QRKELSRDLG LEPLQIKFWF QNKRTQMKAQ  120
HERHDNQILK SDNDKLRAEN NRYKEALSNA TCPNCGGPAA IGEMSFDEQH LRIENARLRE  180
EIDRISAIAA KYVGKPIGSS FSPLAINAPS RSLDLEVGNF GNQAVSIPSE SDKPMIIELA  240
VAAMEELVRM AQVGDPLWVS TDNSNEILNE EEYFRTFPRG IGPKPLGLRS EASRESAVVI  300
MNHINLVEIL MDVNQWSCVF SGIVSRALTL EVLSTGVAGN YNGALQVMTA EFQVPSPLVP  360
TRENYFVRYC KQHSDGSWAV VDVSLDSLRP NPISRTRRRP SGCLIQELPN GYSKVTWVEH  420
MEVDDRSVHT MYKPLVHSGL AFGARRWVST LERQCERLAS SMASNIPASD LSVITSPEGR  480
KSMLKLAERM VMSFCSGVGA STAHAWTTMS STGSDDVRVM TRKSMDDPGR PPGIVLSAAT  540
SFWIPVAPKR VFDFLRDENS RSEWDILSNG GMVQEMAHIA NGREPGNCVS LLRVNSGNSS  600
QSNMLILQES CTDASGSYVI YAPVDIVAMN VVLSGGDPDY VALLPSGFAI LPDVVSSSTA  660
SESCGSLLTV AFQILVDSVP TAKLSLGSVA TVNSLIKCTV ERIKAAVACD RGGGGP*
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Specifically expressed in the layer 1 (L1) of shoot meristems. {ECO:0000269|PubMed:12505995}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that binds to the L1 box DNA sequence 5'-TAAATG[CT]A-3'. Plays a role in maintaining the identity of L1 cells, possibly by interacting with their L1 box or other target-gene promoters. Functionally redundant to ATML1. {ECO:0000269|PubMed:12505995}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00151602001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3528680.0AK352868.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-14-J22.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013629800.10.0PREDICTED: homeobox-leucine zipper protein PROTODERMAL FACTOR 2
RefseqXP_013629801.10.0PREDICTED: homeobox-leucine zipper protein PROTODERMAL FACTOR 2
SwissprotQ93V990.0PDF2_ARATH; Homeobox-leucine zipper protein PROTODERMAL FACTOR 2
TrEMBLA0A078G7D40.0A0A078G7D4_BRANA; BnaC03g30030D protein
STRINGBo3g048340.10.0(Brassica oleracea)
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
AT4G04890.10.0protodermal factor 2
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. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. 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]