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 mrna19572.1-v1.0-hybrid
Organism
Fragaria vesca
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria
Family HD-ZIP
Protein Properties Length: 739aa    MW: 80911.4 Da    PI: 6.2129
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
mrna19572.1-v1.0-hybridgenomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox629.1e-2061116156
                              TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                 Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                              r++ +++t+ q++e+e++F+++++p+ ++r+eL+++lgL+  qVk+WFqN+R+++k
  mrna19572.1-v1.0-hybrid  61 RKRYHRHTQRQIQEMEAFFKECPHPDDKQRKELSRELGLEPLQVKFWFQNKRTQMK 116
                              789999***********************************************998 PP
2START219.31.3e-682534771206
                              HHHHHHHHHHHHHHHHC-TT-EEEE........EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT- CS
                    START   1 elaeeaaqelvkkalaeepgWvkss........esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWd 73 
                              ela +a++el+++a+a++p+Wv           +++n+de++++f+++ +      ++ea+r+s++v+m++++lve+l+d++ qW+
  mrna19572.1-v1.0-hybrid 253 ELAVSAMEELIRMAQAGDPLWVPAHdnsssthhDILNEDEYMRTFPRGLGpkplgLRSEASRESALVIMNHVNLVEILMDVN-QWS 337
                              57899*****************88888899***************99888********************************.*** PP

                              TT-S....EEEEEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EES CS
                    START  74 etla....kaetlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaell 148
                              + +     +a+tl+ +s+g      galq+m+ae+q++splvp R+ +fvRy++q+++g+w++vdvS+ds ++++    + R +++
  mrna19572.1-v1.0-hybrid 338 TVFCgivsRAMTLDILSTGvagnynGALQVMSAEFQVPSPLVPtRENYFVRYCKQHTDGTWAVVDVSLDSLRPNS----ISRTRRR 419
                              ***99999*****************************************************************98....69999** PP

                              SEEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
                    START 149 pSgiliepksnghskvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                              pSg+li++++ng+skv+wvehv++++r +h+++r+lv+sgla+gak+wvatl+rqce+
  mrna19572.1-v1.0-hybrid 420 PSGCLIQELPNGYSKVIWVEHVEVDDRAVHNIYRPLVNSGLAFGAKRWVATLDRQCER 477
                              ********************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.1E-2244116IPR009057Homeodomain-like
SuperFamilySSF466891.75E-1945118IPR009057Homeodomain-like
PROSITE profilePS5007116.95758118IPR001356Homeobox domain
SMARTSM003895.9E-1959122IPR001356Homeobox domain
CDDcd000867.06E-1960119No hitNo description
PfamPF000462.2E-1761116IPR001356Homeobox domain
PROSITE patternPS00027093116IPR017970Homeobox, conserved site
PROSITE profilePS5084845.113244480IPR002913START domain
SuperFamilySSF559618.24E-36244479No hitNo description
CDDcd088759.48E-128248476No hitNo description
SMARTSM002343.6E-68253477IPR002913START domain
PfamPF018527.4E-58254477IPR002913START domain
Gene3DG3DSA:3.30.530.205.0E-6360477IPR023393START-like domain
SuperFamilySSF559613.74E-26498729No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009845Biological Processseed germination
GO:0009913Biological Processepidermal cell differentiation
GO:0048497Biological Processmaintenance of floral organ identity
GO:0048825Biological Processcotyledon development
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 739 aa     Download sequence    Send to blast
MFQPGMFDSH HMSMLDMSTH KSSESDMGRS RDDDFETKSG TETTDAPSGD ELDPSQPRPK  60
RKRYHRHTQR QIQEMEAFFK ECPHPDDKQR KELSRELGLE PLQVKFWFQN KRTQMKAQHE  120
RHENSILKNE NDKLRAENNR YKEALSNATC PNCGGPAALG EMSFDEQHLR IENARLREEI  180
DRISAIAAKY VGKPMSSSFS HLSSSQGPSR SLDLAVSSFG APQSGYVGEM YGSGDLLRSV  240
SVPTDADKPL IVELAVSAME ELIRMAQAGD PLWVPAHDNS SSTHHDILNE DEYMRTFPRG  300
LGPKPLGLRS EASRESALVI MNHVNLVEIL MDVNQWSTVF CGIVSRAMTL DILSTGVAGN  360
YNGALQVMSA EFQVPSPLVP TRENYFVRYC KQHTDGTWAV VDVSLDSLRP NSISRTRRRP  420
SGCLIQELPN GYSKVIWVEH VEVDDRAVHN IYRPLVNSGL AFGAKRWVAT LDRQCERLAS  480
SMANNIPAGD LCVITSTEGR KSMLKLAQRM VLSFCTGVGA STAHAWTTLS ATGSDDVRVM  540
TRKSMDDPGR PPGIVLSAAT SFWLPVPPKR VFDFLRDENS RSEWDILSNG GLVQEMAHIA  600
NGRDPGNCVS LLRVNSANSS QSNMLILQES CTDSTGSYVI YAPVDIVAMN VVLSGGDPDY  660
VALLPSGFAI LPDGPPAGGA GGILDVGSGG SLLTVAFQIL VDSVPTAKLS LGSVATVNNL  720
IKCTVERIRA AVTCDQNP*
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
PlantRegMapmrna19572.1-v1.0-hybrid
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_004293268.10.0PREDICTED: homeobox-leucine zipper protein PROTODERMAL FACTOR 2-like
SwissprotQ93V990.0PDF2_ARATH; Homeobox-leucine zipper protein PROTODERMAL FACTOR 2
TrEMBLA0A2P6Q2V90.0A0A2P6Q2V9_ROSCH; Putative transcription factor & lipid binding Homobox-WOX family
STRINGXP_004293268.10.0(Fragaria vesca)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF15083499
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]