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 Tp57577_TGAC_v2_mRNA16082
Organism
Trifolium pratense
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Trifolium
Family HD-ZIP
Protein Properties Length: 896aa    MW: 98385.6 Da    PI: 6.3692
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp57577_TGAC_v2_mRNA16082genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.91.7e-182684357
                               --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
                   Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                               k  ++t+eq+e+Le++++++++ps  +r++L +++    +++ +q+kvWFqNrR +ek+
  Tp57577_TGAC_v2_mRNA16082 26 KYVRYTSEQVEALERVYAECPKPSSMRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 84
                               56789****************************************************97 PP
2START150.21.8e-471653722204
                                HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEE CS
                      START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevi 85 
                                +aee+++e+++ka+ ++  Wv+++ +++g++++ +f+ s++ sg a+ra+g+v  +++   +e+l+d++ W + ++  e+    
  Tp57577_TGAC_v2_mRNA16082 165 IAEETLTEFLSKATGTAVDWVQMPGMKPGPDSVGIFAISQSGSGVAARACGLVSLEPT-KIAEILKDRLSWFRECRNLEVFTMF 247
                                789*******************************************************.8888888888*******99999999 PP

                                CTT..EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEE CS
                      START  86 ssg..galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghsk 163
                                  g  g+++l +++++a+++l+p Rdf+++Ry+ +l+ g+ v++++S++     p+    +++vRae+lpSg+li+p+++g+s 
  Tp57577_TGAC_v2_mRNA16082 248 PAGngGTVELVYTQTYAPTTLAPaRDFWTLRYTTTLENGSIVVCERSLSGSGTGPNpavAAQFVRAETLPSGYLIRPCDGGGSI 331
                                98888*******************************************98777776689************************* PP

                                EEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXX CS
                      START 164 vtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqc 204
                                +++v+h +l+ ++++++lr+l++s  + ++k++ a+l++ +
  Tp57577_TGAC_v2_mRNA16082 332 IHIVDHLNLEPWSVPEVLRPLYESPKVVAQKMTIAALRYIR 372
                                ************************************99865 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007115.4512185IPR001356Homeobox domain
SMARTSM003896.0E-162389IPR001356Homeobox domain
SuperFamilySSF466891.75E-162588IPR009057Homeodomain-like
CDDcd000861.56E-162686No hitNo description
PfamPF000464.0E-162784IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.602.1E-182884IPR009057Homeodomain-like
CDDcd146862.55E-678117No hitNo description
PROSITE profilePS5084826.074155383IPR002913START domain
CDDcd088753.81E-67159375No hitNo description
Gene3DG3DSA:3.30.530.206.7E-19163347IPR023393START-like domain
SuperFamilySSF559612.88E-33164376No hitNo description
SMARTSM002342.2E-36164374IPR002913START domain
PfamPF018528.5E-45165372IPR002913START domain
PfamPF086702.9E-43763894IPR013978MEKHLA
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: 896 aa     Download sequence    Send to blast
MAMAVAHHRE SSSSGGSIDK HLDSGKYVRY TSEQVEALER VYAECPKPSS MRRQQLIREC  60
PILSNIEPKQ IKVWFQNRRC REKQRKEASR LQTVNRKLSA MNKLLMEEND RLQKQVSQLV  120
CENGFMRQQL HTPSAANTDA SCDSVVTTPQ NSKRDANNPA GLLSIAEETL TEFLSKATGT  180
AVDWVQMPGM KPGPDSVGIF AISQSGSGVA ARACGLVSLE PTKIAEILKD RLSWFRECRN  240
LEVFTMFPAG NGGTVELVYT QTYAPTTLAP ARDFWTLRYT TTLENGSIVV CERSLSGSGT  300
GPNPAVAAQF VRAETLPSGY LIRPCDGGGS IIHIVDHLNL EPWSVPEVLR PLYESPKVVA  360
QKMTIAALRY IRQIAQESSG EVVYGLGRQP AVLRTFSQRL SRGFNDAVNG FNDDGWSILN  420
CDGAEDVIIA VNSTKNLSST SNPASSLTFL GGILCAKASM LLQNVPPAVL VRFLREHRSE  480
WADFNVDAYC AASLKAGNYA YPGMRPTRFT GNQIIMPLGH TIEHEEMLEV IRLEGHSLAQ  540
EDAFVSRDIH LLQICSGTDE NAVGTCSELI FAPIDEMFPD DAPLVPSGFR IIPLDSKPGD  600
KKDTPNSNRT LDLMTSGLEV GPATTHGGAD SSSSQNTRSV LTIAFQFPFE SNMXXXXXXX  660
XXXXXXXXXX XXVVIMARQY VRSVISSVQR VAMAISPSGI NPAVGAKLSP GSPEAVTLAH  720
WICQSYRQVY IFILNISSIL VDILYIFSEK SLTCSSLALI SYYLGSDLLR SDSLVGDLML  780
KQLWHHPDAI LCCSLKSQPV FVFANQAGLD MLETTLVALQ DITLDKIFDE SGRKALCGDF  840
AKLMQQGFAY LPTGMCMSTM GRHVSYEQAI SWKVLTADDN SVHCLAFSFI 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
PlantRegMapTp57577_TGAC_v2_mRNA16082
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004505999.10.0homeobox-leucine zipper protein REVOLUTA-like
SwissprotQ9SE430.0REV_ARATH; Homeobox-leucine zipper protein REVOLUTA
TrEMBLA0A2K3PD790.0A0A2K3PD79_TRIPR; Homeobox-leucine zipper protein REVOLUTA-like
STRINGXP_004505999.10.0(Cicer arietinum)
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]