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 Gorai.010G177800.3
Common NameB456_010G177800
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family HD-ZIP
Protein Properties Length: 615aa    MW: 68504.6 Da    PI: 6.5123
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.010G177800.3genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox63.23.7e-2058113156
                         TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
            Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                         +++ +++t++q++e+e++F+++++p+ ++r+eL ++lgL+  qVk+WFqN+R+++k
  Gorai.010G177800.3  58 KKRYHRHTQHQIQEMEAFFKECPHPDDKQRKELGRELGLEPLQVKFWFQNKRTQMK 113
                         688999***********************************************998 PP
2START221.92.1e-692474661206
                         HHHHHHHHHHHHHHHHC-TT-EEEE...EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EE CS
               START   1 elaeeaaqelvkkalaeepgWvkss...esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetla....ka 79 
                         ela +a++el+++a+++ep+Wv      + +n+de+l++f+++ +      ++ea+r+s+vv+m++++lve+l+d++ qW+  +     +a
  Gorai.010G177800.3 247 ELAVAAMEELIRMAQSGEPLWVPGDnstDVLNEDEYLRSFPRGIGpkplgLRSEASRESAVVIMNHVNLVEILMDVN-QWSSVFCgivsRA 336
                         57899*****************87777799************999********************************.******99999** PP

                         EEEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEE CS
               START  80 etlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghsk 163
                         +tlev+s+g      galq+m+ae+q++splvp R+ +fvRy++q+ +g+w++vdvS+d+ +++p    + +++++pSg+li++++ng+sk
  Gorai.010G177800.3 337 MTLEVLSTGvagnynGALQVMTAEFQVPSPLVPtRENYFVRYCKQHIDGTWAVVDVSLDNLRPNP----MSKCRRRPSGCLIQELPNGYSK 423
                         ****************************************************************9....688999**************** PP

                         EEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
               START 164 vtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                         v+wvehv++++r +h+++r++v+sgla+gak+wvatl+rqce+
  Gorai.010G177800.3 424 VIWVEHVEVDDRAVHNIYRPVVNSGLAFGAKRWVATLDRQCER 466
                         *****************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.603.6E-2242109IPR009057Homeodomain-like
SuperFamilySSF466894.18E-1945115IPR009057Homeodomain-like
PROSITE profilePS5007116.64955115IPR001356Homeobox domain
SMARTSM003893.2E-1956119IPR001356Homeobox domain
PfamPF000467.9E-1858113IPR001356Homeobox domain
CDDcd000863.48E-1858116No hitNo description
SuperFamilySSF559619.53E-37238468No hitNo description
PROSITE profilePS5084844.574238469IPR002913START domain
CDDcd088751.31E-129242465No hitNo description
SMARTSM002345.0E-71247466IPR002913START domain
PfamPF018521.3E-58248466IPR002913START domain
Gene3DG3DSA:3.30.530.201.7E-5343466IPR023393START-like domain
SuperFamilySSF559611.21E-14486609No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009845Biological Processseed germination
GO:0009913Biological Processepidermal cell differentiation
GO:0048497Biological Processmaintenance of floral organ identity
GO:0048825Biological Processcotyledon development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008289Molecular Functionlipid binding
Sequence ? help Back to Top
Protein Sequence    Length: 615 aa     Download sequence    Send to blast
MFSPNLFESP HMFDMSHKTS ESELMGKIRD DDYEIKSVNE TMDAPSGDDQ DPDQRPKKKR  60
YHRHTQHQIQ EMEAFFKECP HPDDKQRKEL GRELGLEPLQ VKFWFQNKRT QMKAQHERHE  120
NAILKAENEK LRAENNRYKE ALSNATCPSC GGPAALGEMS FDEQHLRIEN ARLREEIDRI  180
SGIAAKYVGK PLSSLPHLSS HLHSRSVDLG ASNFGNQSGF VGEMDRSGDL LRSVSGPTEA  240
DKPMIVELAV AAMEELIRMA QSGEPLWVPG DNSTDVLNED EYLRSFPRGI GPKPLGLRSE  300
ASRESAVVIM NHVNLVEILM DVNQWSSVFC GIVSRAMTLE VLSTGVAGNY NGALQVMTAE  360
FQVPSPLVPT RENYFVRYCK QHIDGTWAVV DVSLDNLRPN PMSKCRRRPS GCLIQELPNG  420
YSKVIWVEHV EVDDRAVHNI YRPVVNSGLA FGAKRWVATL DRQCERLASS MASNIPAGDL  480
CVITSPEGRK SMLKLAERMV TSFCTGVGAS TAHAWTTLSA TGSDDVRVMT RKSMDDPGRP  540
PGIVLSAATS FWIQVPPKRV FDFLRDENSR SEWDILSNGG LVQEMAHIAN GRDPGNCVSL  600
LRVNVMQTLA KATC*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: First expressed in the apical cell after the first asymmetric division of the zygote. Expressed in all proembryo cells until the eight-cell stage, and then restricted to the protoderm in the 16-cell proembryo. Not detected in the torpedo stage, but reappeared later in the L1 layer of the shoot apical meristem in the mature embryo. After germination, the L1 layer-specific expression pattern is maintained in the vegetative shoot apical meristem, inflorescence, floral meristems, and the young floral organ primordia. Finally, expressed in the protoderm of the ovule primordia and integuments and gradually restricted to the endothelium surrounding the embryo sac. {ECO:0000269|PubMed:10571886, ECO:0000269|PubMed:8989876}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in cell specification and pattern formation during embryogenesis. 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 PDF2. {ECO:0000269|PubMed:11439135, ECO:0000269|PubMed:12505995}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN5859520.0JN585952.1 Gossypium hirsutum HD-1D gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012451363.10.0PREDICTED: homeobox-leucine zipper protein MERISTEM L1-like
RefseqXP_012451364.10.0PREDICTED: homeobox-leucine zipper protein MERISTEM L1-like
RefseqXP_012451365.10.0PREDICTED: homeobox-leucine zipper protein MERISTEM L1-like
SwissprotQ8RWU40.0ATML1_ARATH; Homeobox-leucine zipper protein MERISTEM L1
TrEMBLA0A0D2R9I90.0A0A0D2R9I9_GOSRA; Uncharacterized protein
STRINGGorai.010G177800.10.0(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G21750.20.0HD-ZIP family protein
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. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]
  3. Takada S,Takada N,Yoshida A
    Induction of epidermal cell fate in Arabidopsis shoots.
    Plant Signal Behav, 2013. 8(11): p. e26236
    [PMID:23989220]
  4. Liang Z,Brown RC,Fletcher JC,Opsahl-Sorteberg HG
    Calpain-Mediated Positional Information Directs Cell Wall Orientation to Sustain Plant Stem Cell Activity, Growth and Development.
    Plant Cell Physiol., 2015. 56(9): p. 1855-66
    [PMID:26220906]
  5. Katagiri Y, et al.
    The coordination of ploidy and cell size differs between cell layers in leaves.
    Development, 2016. 143(7): p. 1120-5
    [PMID:26903507]
  6. Seeliger I, et al.
    The AP2-type transcription factors DORNRÖSCHEN and DORNRÖSCHEN-LIKE promote G1/S transition.
    Mol. Genet. Genomics, 2016. 291(5): p. 1835-49
    [PMID:27277595]
  7. Schwarz EM,Roeder AH
    Transcriptomic Effects of the Cell Cycle Regulator LGO in Arabidopsis Sepals.
    Front Plant Sci, 2016. 7: p. 1744
    [PMID:27920789]
  8. Meyer HM, et al.
    Fluctuations of the transcription factor ATML1 generate the pattern of giant cells in the Arabidopsis sepal.
    Elife, 2018.
    [PMID:28145865]