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 mrna21561.1-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: 846aa    MW: 92880.6 Da    PI: 6.468
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
mrna21561.1-v1.0-hybridgenomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox56.54.8e-182986457
                             -SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
                 Homeobox  4 RttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                               ++t+eq+e+Le++++++++ps  +r++L + +    +++ +q+kvWFqNrR +ek+
  mrna21561.1-v1.0-hybrid 29 YVRYTSEQVEALERVYAECPKPSSLRRQQLIRDCpilsNIEPKQIKVWFQNRRCREKQ 86
                             5789****************************************************97 PP
2START162.82.6e-511653722204
                              HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECT CS
                    START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetleviss 87 
                              +aee+++e+++ka+ ++  Wv+++ +++g++++ +f+ s+++sg a+ra+g+v  +++   +e+l+d++ W +++++ e+      
  mrna21561.1-v1.0-hybrid 165 IAEETLAEFLSKATGTAVDWVQMPGMKPGPDSVGIFAISQSCSGVAARACGLVSLEPT-KIAEILKDRPSWFRDCRSLEVFTMFPA 249
                              7899******************************************************.7777777777***********999999 PP

                              T..EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEE CS
                    START  88 g..galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwv 167
                              g  g+++l++++++a+++l+p Rdf+++Ry+ +l  g++v++++S++     p+    +++vRae+lpSg+li+p+++g+s +++v
  mrna21561.1-v1.0-hybrid 250 GngGTIELIYTQTYAPTTLAPaRDFWTLRYTTSLDNGSFVVCERSLSGSGAGPSgasAAQFVRAEMLPSGYLIRPCEGGGSIIHIV 335
                              999********************************************999988889999*************************** PP

                              E-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXX CS
                    START 168 ehvdlkgrlphwllrslvksglaegaktwvatlqrqc 204
                              +h +l++++++++lr+l++s+ + ++k++ a+l++ +
  mrna21561.1-v1.0-hybrid 336 DHLNLEAWSVPEVLRPLYESSKVVAQKRTIAALRYIR 372
                              ********************************99865 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.603.4E-18986IPR009057Homeodomain-like
PROSITE profilePS5007115.1922387IPR001356Homeobox domain
SMARTSM003896.4E-152591IPR001356Homeobox domain
SuperFamilySSF466897.7E-162689IPR009057Homeodomain-like
CDDcd000861.68E-152888No hitNo description
PfamPF000461.0E-152986IPR001356Homeobox domain
CDDcd146864.89E-680119No hitNo description
PROSITE profilePS5084827.152155383IPR002913START domain
CDDcd088751.24E-70159375No hitNo description
SuperFamilySSF559616.59E-34164376No hitNo description
SMARTSM002342.9E-45164374IPR002913START domain
Gene3DG3DSA:3.30.530.209.0E-20164354IPR023393START-like domain
PfamPF018526.8E-49165372IPR002913START domain
PfamPF086701.3E-47699844IPR013978MEKHLA
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009855Biological Processdetermination of bilateral symmetry
GO:0009944Biological Processpolarity specification of adaxial/abaxial axis
GO:0009956Biological Processradial pattern formation
GO:0010014Biological Processmeristem initiation
GO:0010051Biological Processxylem and phloem pattern formation
GO:0010089Biological Processxylem development
GO:0030154Biological Processcell differentiation
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009005anatomyroot
PO:0007134developmental stagesporophyte vegetative stage
Sequence ? help Back to Top
Protein Sequence    Length: 846 aa     Download sequence    Send to blast
MAMAVAHHQH RESSSGSSIN KHLNDAGKYV RYTSEQVEAL ERVYAECPKP SSLRRQQLIR  60
DCPILSNIEP KQIKVWFQNR RCREKQRKES SRLQTVNRKL SAMNKLLMEE NDRLQKQVSQ  120
LVCENGYMRQ QLHTAPATDA SCDSVVTTPQ HSLRDANNPA GLLSIAEETL AEFLSKATGT  180
AVDWVQMPGM KPGPDSVGIF AISQSCSGVA ARACGLVSLE PTKIAEILKD RPSWFRDCRS  240
LEVFTMFPAG NGGTIELIYT QTYAPTTLAP ARDFWTLRYT TSLDNGSFVV CERSLSGSGA  300
GPSGASAAQF VRAEMLPSGY LIRPCEGGGS IIHIVDHLNL EAWSVPEVLR PLYESSKVVA  360
QKRTIAALRY IRQIAQETSG EVVYSLGRQP AVLRTFSQRL IRGFNDAVNG FNDDGWSLIN  420
CDGAEDIIMA VNSTKNLTTT NPANSFAFLG GILCAKASML LQNVPPAVLV RFLREHRSEW  480
ADFNVDAYSA ASLKSGSYAY PGMRPTRFTG GQIIMPLGHT IEQEELLEVV RLEGHSFSQE  540
EAFASRDIHL LQICSGVDEN AVGACSELFF APIDEMFPDD APLLPSGFRI IPLESKTSDS  600
KDALATHRTL DLTSSLEVGS TTNHNAGDLN SFHNTRSVLT IAFQFPFESS LQDNVASMAR  660
QYVRNVISSV QRVAMAISPS GLSPSMGPKL SPGSPEALTL ANWICQSYRQ VYHLGAELLQ  720
PDSLGGDSML KHLWHHQDAI LCCSLKSVPV FIFANQAGLD MLETTLVALQ DISLDKIFDE  780
SGRKTLCTDF AKLMQQGFAY LPAGICMSTM GRHVSYEQAI GWKVLSGEDN SVHCLAFSFV  840
NWSFV*
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the regulation of interfascicular fiber (cortical cells) and secondary xylem differentiation in the inflorescence stems. Required for lateral shoot meristems (LSMs) and flower meristems (FMs) initiation. May be involved in the determination of vascular patterning and organ polarity (PubMed:10559440, PubMed:11169198, PubMed:11402186, PubMed:15111711, PubMed:15598805, PubMed:7555701). Directly regulates the expression of AGO10, ZPR1, ZPR2, ZPR3 and ZPR4 (PubMed:22781836). Required to regulate adaxial-abaxial polarity and leaf axial patterning (PubMed:20807212). {ECO:0000269|PubMed:10559440, ECO:0000269|PubMed:11169198, ECO:0000269|PubMed:11402186, ECO:0000269|PubMed:15111711, ECO:0000269|PubMed:15598805, ECO:0000269|PubMed:20807212, ECO:0000269|PubMed:22781836, ECO:0000269|PubMed:7555701}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapmrna21561.1-v1.0-hybrid
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. Repressed by ZPR and miR165. Induced by DOF5.1 (PubMed:20807212). {ECO:0000269|PubMed:15111711, ECO:0000269|PubMed:17237362, ECO:0000269|PubMed:20807212}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKJ0005540.0KJ000554.1 Prunus persica REV/IFL1 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004291573.10.0PREDICTED: homeobox-leucine zipper protein REVOLUTA
SwissprotQ9SE430.0REV_ARATH; Homeobox-leucine zipper protein REVOLUTA
TrEMBLA0A2P6QH910.0A0A2P6QH91_ROSCH; Putative transcription factor & lipid binding Homobox-WOX family
STRINGXP_004291573.10.0(Fragaria vesca)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF66333147
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60690.10.0HD-ZIP family protein
Publications ? help Back to Top
  1. Lian H,Li X,Liu Z,He Y
    HYL1 is required for establishment of stamen architecture with four microsporangia in Arabidopsis.
    J. Exp. Bot., 2013. 64(11): p. 3397-410
    [PMID:23918970]
  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. Baima S, et al.
    Negative feedback regulation of auxin signaling by ATHB8/ACL5-BUD2 transcription module.
    Mol Plant, 2014. 7(6): p. 1006-1025
    [PMID:24777988]
  4. Jia X, et al.
    Functional plasticity of miR165/166 in plant development revealed by small tandem target mimic.
    Plant Sci., 2015. 233: p. 11-21
    [PMID:25711809]
  5. Roodbarkelari F,Du F,Truernit E,Laux T
    ZLL/AGO10 maintains shoot meristem stem cells during Arabidopsis embryogenesis by down-regulating ARF2-mediated auxin response.
    BMC Biol., 2015. 13: p. 74
    [PMID:26358077]
  6. Shi B, et al.
    Two-Step Regulation of a Meristematic Cell Population Acting in Shoot Branching in Arabidopsis.
    PLoS Genet., 2016. 12(7): p. e1006168
    [PMID:27398935]