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 Solyc11g069470.1.1
Common NameLOC101259910
Organism
Solanum lycopersicum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family HD-ZIP
Protein Properties Length: 842aa    MW: 92186.2 Da    PI: 6.15
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc11g069470.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.32.7e-182583357
                        --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
            Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                        k  ++t+eq+e+Le++++++++ps  +r++L +++    +++ +q+kvWFqNrR +ek+
  Solyc11g069470.1.1 25 KYVRYTAEQVEALERVYAECPKPSSLRRQQLIREChilsNIEPKQIKVWFQNRRCREKQ 83
                        56789****************************************************97 PP
2START154.68.2e-491643712204
                         HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..EE CS
               START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..ga 90 
                         +aee+++e+++ka+ ++  Wv ++ +++g++++ +f+ s+++sg a+ra+g+v  +++   +++l+d++ W ++++ +e++     g  g+
  Solyc11g069470.1.1 164 IAEETLAEFLSKATGTAVDWVPMPGMKPGPDSVGIFAISHSCSGVAARACGLVSLEPT-KIADILKDRPSWFRDCRNVEVITMFPAGngGT 253
                         68999*****************************************************.8899999999***************99999** PP

                         EEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXX CS
               START  91 lqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgrlp 177
                         ++l +++ +a+++l+p Rdf+++Ry+ +l  g++v++++S++ + + p+    s++vRa++lpSg+li+p+++g+s +++v+h +l++++ 
  Solyc11g069470.1.1 254 VELLYTQIYAPTTLAPaRDFWTLRYTTTLDNGSLVVCERSLSGNGPGPNptaASQFVRAQMLPSGYLIRPCDGGGSIIHIVDHLNLEAWSA 344
                         ******************************************99998888899************************************** PP

                         HHHHHHHHHHHHHHHHHHHHHHTXXXX CS
               START 178 hwllrslvksglaegaktwvatlqrqc 204
                         +++lr+l++s+ + ++k++ a+l++ +
  Solyc11g069470.1.1 345 PEILRPLYESSKVVAQKMTIAALRYAR 371
                         ***********************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007115.4182084IPR001356Homeobox domain
SuperFamilySSF466899.41E-172186IPR009057Homeodomain-like
SMARTSM003896.7E-172288IPR001356Homeobox domain
CDDcd000864.78E-162585No hitNo description
PfamPF000467.2E-162683IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.603.0E-182783IPR009057Homeodomain-like
CDDcd146864.87E-677116No hitNo description
PROSITE profilePS5084826.833154382IPR002913START domain
CDDcd088752.73E-68158374No hitNo description
SMARTSM002341.5E-40163373IPR002913START domain
PfamPF018525.7E-46164371IPR002913START domain
SuperFamilySSF559615.22E-34164375No hitNo description
Gene3DG3DSA:3.30.530.204.8E-20164368IPR023393START-like domain
PfamPF086701.0E-48696840IPR013978MEKHLA
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
Sequence ? help Back to Top
Protein Sequence    Length: 842 aa     Download sequence    Send to blast
MAMVAQQHRE SSSGSITKHL DSSGKYVRYT AEQVEALERV YAECPKPSSL RRQQLIRECH  60
ILSNIEPKQI KVWFQNRRCR EKQRKESSRL QTVNRKLSAM NKLLMEENDR LQKQVSQLVC  120
ENGYMRQQLQ SVSAATTDVS CESVVTTPQH SLRDANNPAG LLPIAEETLA EFLSKATGTA  180
VDWVPMPGMK PGPDSVGIFA ISHSCSGVAA RACGLVSLEP TKIADILKDR PSWFRDCRNV  240
EVITMFPAGN GGTVELLYTQ IYAPTTLAPA RDFWTLRYTT TLDNGSLVVC ERSLSGNGPG  300
PNPTAASQFV RAQMLPSGYL IRPCDGGGSI IHIVDHLNLE AWSAPEILRP LYESSKVVAQ  360
KMTIAALRYA RQLAQETSGE VVYGLGRQPA VLRTFSQRLC RGFNDAINGF GDDGWSMLSS  420
DGAEDVIVAV NSRKNLATTS IPLSPLGGVL CAKASMLLQN VPPAVLVRFL REHRSEWADF  480
NVDAFVASAL KSCPYTYPGM RPTRFTGSQI IMPLGHTIEH EEMLEVIRLE GHSIGQEDAF  540
MPRDIHLLQM CSGTDENAVG ACSELVFAPI DEMFPDDAPL LPSGFRIIPL ESKSGDAQDT  600
LNAHRTLDLA SSLEVGPATN STTGDAASCY SARSVLTIAF QFPFEDNLQD NVATMARQYV  660
RSVVSSVQRV AMAISPTGMN PTLGAKLSPG SPEAVTLSHW ICQSYSYHMG TELLRADSSG  720
DESVLKNLWQ HQDAILCCSL KSLPVFIFAN KAGLDMLETT LVALQDISLD KIFDESGRKV  780
LLSEFAKIME QGFACLPGGI CMSTMGRHIS YEQAIAWKVF ASSEENAVHC LAFSFINWSF  840
V*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.47310.0flower| leaf| root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed at the earliest stages and throughout LSM initiation and development. In embryo development, expressed at the heart stage until the 'walking stick' stage in the adaxial portion of the cotyledon primordia, the shoot apical meristem (SAM) and the vascular precursor cells of the hypocotyl and root. In developing flowers, expressed first at stage 1 in the center of L3 layer and then expands to the center of L2 and L1 layers. Expressed in the center of flower meristem through stages 4 and 5. At stage 6, expressed in the adaxial side of the carpel primordia and then on the adaxial carpel face. {ECO:0000269|PubMed:11169198}.
UniprotTISSUE SPECIFICITY: Expressed in the interfascicular regions of stem and vascular bundles of young roots and leaves. {ECO:0000269|PubMed:10559440}.
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}.
Function -- GeneRIF ? help Back to Top
  1. SlREV may regulate genes related to meristem maintenance and cell differentiation in the development of the flower pedicel abscission zone, and modulate genes in homeodomain and MADS-box families and hormone pathways during fruit formation. [SlREV]
    [PMID: 25443836]
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc11g069470.1.1
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
GenBankBT0135770.0Lycopersicon esculentum clone 132322R, mRNA sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004251138.10.0homeobox-leucine zipper protein REVOLUTA
SwissprotQ9SE430.0REV_ARATH; Homeobox-leucine zipper protein REVOLUTA
TrEMBLA0A3Q7J0V00.0A0A3Q7J0V0_SOLLC; Uncharacterized protein
STRINGSolyc11g069470.1.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA45724140
Representative plantOGRP6511671
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. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]
  2. 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]
  3. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  4. 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]
  5. Hu G, et al.
    Overexpression of SlREV alters the development of the flower pedicel abscission zone and fruit formation in tomato.
    Plant Sci., 2014. 229: p. 86-95
    [PMID:25443836]
  6. 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]
  7. 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]
  8. 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]