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 XP_009110376.1
Organism
Brassica rapa
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: 684aa    MW: 75954.5 Da    PI: 6.8405
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009110376.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox61.11.7e-192172556
                    SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
        Homeobox  5 ttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                    +++t++q+++Le++F+++++p++++r +L+++lgL  rq+k+WFqNrR+++k
  XP_009110376.1 21 HRHTPHQIQRLESAFNECQHPDEKQRMQLSRELGLAPRQIKFWFQNRRTQKK 72
                    689**********************************************988 PP
2START148.84.7e-472064272206
                     HHHHHHHHHHHHHHHC-TT-EEEE...EXCCTTEEEEEEESSS........SCEEEEEEEECCSCHHHHHHHHHCCCGG...CT-TT-SEEEEEE CS
           START   2 laeeaaqelvkkalaeepgWvkss...esengdevlqkfeeskv.......dsgealrasgvvdmvlallveellddke...qWdetlakaetle 83 
                     +a +a++el+++ + +ep+W k     + +n + +   f+++ +       +++ea+r sg+v+ ++ +lv  l+d+ +    +   +a+ +tl+
  XP_009110376.1 206 VAVTAMEELLRLTQTNEPLWIKNDgarDVLNLESYENMFPRASSrggknhnSRVEASRSSGIVFINAITLVDMLMDSVKsaeLFPSVVASSKTLA 300
                     7899******************99999777777777777776667789999**************************999999************ PP

                     EECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE CS
           START  84 vissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwvehvd 171
                     v+ssg       al+lm  elq+lsplvp R+f  +Ry++q + g+w+iv vS + +q+ + +    R  ++pSg+li+++sng++kvtwvehv+
  XP_009110376.1 301 VVSSGlrgnhgDALHLMLEELQMLSPLVPtREFSLLRYCQQIEHGTWAIVNVSYELPQFMS-H---SRPYRFPSGCLIQDMSNGYCKVTWVEHVE 391
                     ***********************************************************99.4...55566************************ PP

                     --SSXX.HHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
           START 172 lkgrlp.hwllrslvksglaegaktwvatlqrqcek 206
                      +++ p h++++  v+ gla+ga +w atlqr ce+
  XP_009110376.1 392 ISEQEPiHEMFKDSVREGLAFGAERWIATLQRMCER 427
                     **********************************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-20568IPR009057Homeodomain-like
SuperFamilySSF466898.77E-19974IPR009057Homeodomain-like
PROSITE profilePS5007117.3291474IPR001356Homeobox domain
SMARTSM003891.1E-181578IPR001356Homeobox domain
CDDcd000862.57E-191675No hitNo description
PfamPF000464.1E-172172IPR001356Homeobox domain
PROSITE patternPS0002704972IPR017970Homeobox, conserved site
PROSITE profilePS5084848.004196430IPR002913START domain
SuperFamilySSF559611.65E-29197429No hitNo description
CDDcd088752.46E-101200426No hitNo description
SMARTSM002341.5E-32205427IPR002913START domain
PfamPF018523.1E-39206427IPR002913START domain
Gene3DG3DSA:3.30.530.203.5E-6257394IPR023393START-like domain
SuperFamilySSF559613.02E-19443621No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010091Biological Processtrichome branching
GO:0048497Biological Processmaintenance of floral organ identity
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 684 aa     Download sequence    Send to blast
MEFLGDSSET DKKTMKKKRF HRHTPHQIQR LESAFNECQH PDEKQRMQLS RELGLAPRQI  60
KFWFQNRRTQ KKAQHERADN CALKEENDRI RCENIAIREA LKHTICPTCG DAPSHEDSYF  120
DEQKLRIENA HLREELERVS SIAAKFMGRP LSHLPPLLNQ MPFHSGGLSL DFDLIPGSGS  180
SMAAPTLPSQ PNLVLSDIDK SLMTNVAVTA MEELLRLTQT NEPLWIKNDG ARDVLNLESY  240
ENMFPRASSR GGKNHNSRVE ASRSSGIVFI NAITLVDMLM DSVKSAELFP SVVASSKTLA  300
VVSSGLRGNH GDALHLMLEE LQMLSPLVPT REFSLLRYCQ QIEHGTWAIV NVSYELPQFM  360
SHSRPYRFPS GCLIQDMSNG YCKVTWVEHV EISEQEPIHE MFKDSVREGL AFGAERWIAT  420
LQRMCERFAA LMEPATSSMI PSPEGKRSIM KLAQRMVSNF CLSVGTSNNT RSTVVSGMNE  480
FGIRVTSYKS HHEPNGMVLC AATSFWLPVS PLIVFNFLKD ERTRPQWDVL LNGSSVQEVA  540
HIANGSHPGN CISVLRGFNA SSSQNNMLIL QESCVDSSGS LVVYTPLDLP ALNMAMSGQD  600
TSYIPILPSG FAISPDGSRS SQIPELKVEG GSGGGGSLIT VGFQIMVSSL QSGKLNMESM  660
ETVNNLISST VHHIKTTLNC PSTA
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During embryo development, expressed in all cells at the 4- and 16-cell embryo stages. Expression is restricted to the protoderm from the globular stage onward. {ECO:0000269|PubMed:25564655}.
UniprotTISSUE SPECIFICITY: Expressed in apical meristems and young epidermal tissue including trichomes and stipules. Expressed in lateral root tips, the L1 layer of apical inflorescence meristems and early flower primordia, carpel and stamen filament epidermis, stigma papillae, ovule primordia, nucellus and embryo. {ECO:0000269|PubMed:16778018}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that acts as negative regulator of trichome branching in association with HDG11 (PubMed:16778018). May regulate cell differentiation and proliferation during root and shoot meristem development (PubMed:25564655). Acts as positive regulator of SCL18/LAS expression (PubMed:25358340). {ECO:0000269|PubMed:16778018, ECO:0000269|PubMed:25358340, ECO:0000269|PubMed:25564655}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009110376.1
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_009110376.10.0PREDICTED: homeobox-leucine zipper protein HDG12-like isoform X1
SwissprotQ9LMT80.0HDG12_ARATH; Homeobox-leucine zipper protein HDG12
TrEMBLM4DJA00.0M4DJA0_BRARP; Uncharacterized protein
STRINGBra016578.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM30042665
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G17920.10.0homeodomain GLABROUS 12
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. Tian C, et al.
    An organ boundary-enriched gene regulatory network uncovers regulatory hierarchies underlying axillary meristem initiation.
    Mol. Syst. Biol., 2014. 10: p. 755
    [PMID:25358340]
  3. Horstman A, et al.
    AIL and HDG proteins act antagonistically to control cell proliferation.
    Development, 2015. 142(3): p. 454-64
    [PMID:25564655]