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.011G004200.1
Common NameB456_011G004200, LOC105776758
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: 854aa    MW: 93698.9 Da    PI: 6.2495
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.011G004200.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox58.61e-181977357
                        --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
            Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                        k  ++t+eq+e+Le++++++++ps  +r++L +++    +++ +q+kvWFqNrR +ek+
  Gorai.011G004200.1 19 KYVRYTPEQVEALERVYNECPKPSSLRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 77
                        6789*****************************************************97 PP
2START171.45.8e-541693762204
                         HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..EE CS
               START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..ga 90 
                         +aee+++e+++ka+ ++  Wv++  +++g++++ +++ s+++sg a+ra+g+v  +++  v+e+l+d++ W ++++ +++l  i ++  g+
  Gorai.011G004200.1 169 IAEETLAEFLSKATGTAVDWVQMIGMKPGPDSIGIVAVSRNCSGVAARACGLVSLEPT-KVAEILKDRPSWYRDCRCIDVLSIIPTAngGT 258
                         7899******************************************************.8888888888****************9999** PP

                         EEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXX CS
               START  91 lqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgrlp 177
                         ++l++++++a+++l++ Rdf+++Ry+ +l++g++vi+++S++s +  p+   + s+vRae+lpSg+li+p+++g+s +++v+hvdl+ +++
  Gorai.011G004200.1 259 IELIYMQTYAPTTLAAaRDFWTLRYTTSLEDGSLVICERSLTSSTGGPTgppTTSFVRAEMLPSGFLIRPCDGGGSIIHIVDHVDLDVWSV 349
                         ********************************************99999999*************************************** PP

                         HHHHHHHHHHHHHHHHHHHHHHTXXXX CS
               START 178 hwllrslvksglaegaktwvatlqrqc 204
                         +++lr+l++s+ + ++k++ a+l++ +
  Gorai.011G004200.1 350 PEVLRPLYESSKILAQKMTIAALRHIR 376
                         **********************99865 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.2E-18477IPR009057Homeodomain-like
PROSITE profilePS5007115.7581478IPR001356Homeobox domain
SMARTSM003891.6E-151682IPR001356Homeobox domain
PfamPF000462.7E-161977IPR001356Homeobox domain
CDDcd000868.29E-171979No hitNo description
SuperFamilySSF466891.75E-161981IPR009057Homeodomain-like
CDDcd146861.81E-671110No hitNo description
PROSITE profilePS5084826.735159387IPR002913START domain
CDDcd088753.91E-66163379No hitNo description
SMARTSM002347.1E-51168378IPR002913START domain
Gene3DG3DSA:3.30.530.204.1E-23168373IPR023393START-like domain
PfamPF018521.5E-51169376IPR002913START domain
SuperFamilySSF559613.71E-38169380No hitNo description
SuperFamilySSF559618.52E-6416501No hitNo description
SuperFamilySSF559618.52E-6529602No hitNo description
PfamPF086705.9E-49705852IPR013978MEKHLA
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:0010072Biological Processprimary shoot apical meristem specification
GO:0080060Biological Processintegument development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008289Molecular Functionlipid binding
Sequence ? help Back to Top
Protein Sequence    Length: 854 aa     Download sequence    Send to blast
MALSMHKESL NNKQMDSSKY VRYTPEQVEA LERVYNECPK PSSLRRQQLI RECPILSNIE  60
PKQIKVWFQN RRCREKQRKE ASRLQTVNRK LTAMNKLLME ENDRLQKQVS HLVYENGYMK  120
QQLQTASVTT TDNNSCESVV VSGQHQQQQN PTPRHPQRDA NNPAGLLTIA EETLAEFLSK  180
ATGTAVDWVQ MIGMKPGPDS IGIVAVSRNC SGVAARACGL VSLEPTKVAE ILKDRPSWYR  240
DCRCIDVLSI IPTANGGTIE LIYMQTYAPT TLAAARDFWT LRYTTSLEDG SLVICERSLT  300
SSTGGPTGPP TTSFVRAEML PSGFLIRPCD GGGSIIHIVD HVDLDVWSVP EVLRPLYESS  360
KILAQKMTIA ALRHIRQIAQ ETNGEIQYGG GRQPAVLRTF SQRLCRGFND AVNGFVDDGW  420
SLMGSDGVED VTIMINSSPG KFFGSQYNTS MVPSFGGGVL CAKASMLLQS VPPALLVRFL  480
REHRSEWADY GIDTYSAACL KPNPYTVPCA RPSGFPSSQV ILPLAHTVEH EEFLEVVRLE  540
GQAFTPEDVA LARDMYLLQL CSGIDENAVG ACAQLVFAPI DESFADNAPL LPSGFRVIPL  600
DSKPVMDGPG AARTLDLAST LEVGPGSNRS TGDGEPNSYN LRSVLTIAFQ FTFENHLRDD  660
VASMARQYVR SVVGSVQRVA MAIAPSRISP GLGPKSLPGS PEALTLARWI CRSYRIHTGG  720
ELLRADSQSG DTLLKQLWNH SDAIMCCSLK TNASPVFTFA NQAGLDMLET TLVALQDIML  780
DKILDEAGRK SLCAEFSKIM QQGFAHLPAG ICVSSMGRPV SYEQAIVWKV VDDDNDDAAN  840
HCLGLMFVNW SFV*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed at the youngest stages of ovule development, predominantly to the adaxial side of the ovule primordium. Later, expression becomes restricted to a region in the distal chalaza. When the integuments initiate, expressed in the inner integument, with highest expression in the inner layer of the inner integument. Expressed in the vegetative shoot apical meristem (SAM) and initially throughout the presumptive cotyledons. At the globular stage, just before cotyledon outgrowth, expressed at high levels in cotyledon adaxial domains. Expression is lost from the SAM of torpedo stage embryos but is regained late in embryogenesis, extending to young primordia after germination, and becoming progressively restricted to the adaxial domain and the vasculature. Preferentially expressed in the adaxial domain of the developing leaf. Expressed throughout the plastochron 0 (P0) leaf primordium and expression increases in P1 to become preferentially localized to the adaxial leaf domain by the P2 stage (polar expression). {ECO:0000269|PubMed:11395776, ECO:0000269|PubMed:15328016}.
UniprotTISSUE SPECIFICITY: Expressed in the center of the meristem and on the adaxial side of the leaves. {ECO:0000269|PubMed:11395776}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the determination of adaxial-abaxial polarity in ovule primordium. Specifies adaxial leaf fates. {ECO:0000269|PubMed:11395776, ECO:0000269|PubMed:15328016, ECO:0000269|PubMed:15598805}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by miR165 and miR166. {ECO:0000269|PubMed:14999284, ECO:0000269|PubMed:16033795, ECO:0000269|PubMed:17237362}.
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_012455107.10.0PREDICTED: homeobox-leucine zipper protein ATHB-14-like isoform X1
SwissprotO042910.0ATB14_ARATH; Homeobox-leucine zipper protein ATHB-14
TrEMBLA0A0D2REY50.0A0A0D2REY5_GOSRA; Uncharacterized protein
STRINGGorai.011G004200.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM42562653
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G34710.10.0HD-ZIP family protein
Publications ? help Back to Top
  1. 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]
  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. 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]
  4. Müller CJ, et al.
    PHABULOSA Mediates an Auxin Signaling Loop to Regulate Vascular Patterning in Arabidopsis.
    Plant Physiol., 2016. 170(2): p. 956-70
    [PMID:26637548]
  5. Yamada T,Sasaki Y,Hashimoto K,Nakajima K,Gasser CS
    CORONA, PHABULOSA and PHAVOLUTA collaborate with BELL1 to confine WUSCHEL expression to the nucellus in Arabidopsis ovules.
    Development, 2016. 143(3): p. 422-6
    [PMID:26700684]
  6. Kim ES, et al.
    HAWAIIAN SKIRT regulates the quiescent center-independent meristem activity in Arabidopsis roots.
    Physiol Plant, 2016. 157(2): p. 221-33
    [PMID:26968317]
  7. Husbands AY,Aggarwal V,Ha T,Timmermans MC
    In Planta Single-Molecule Pull-Down Reveals Tetrameric Stoichiometry of HD-ZIPIII:LITTLE ZIPPER Complexes.
    Plant Cell, 2016. 28(8): p. 1783-94
    [PMID:27385814]
  8. Di Ruocco G, et al.
    Differential spatial distribution of miR165/6 determines variability in plant root anatomy.
    Development, 2018.
    [PMID:29158439]
  9. Wójcik AM,Nodine MD,Gaj MD
    miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 2024
    [PMID:29321785]
  10. Hashimoto K,Miyashima S,Sato-Nara K,Yamada T,Nakajima K
    Functionally Diversified Members of the MIR165/6 Gene Family Regulate Ovule Morphogenesis in Arabidopsis thaliana.
    Plant Cell Physiol., 2018. 59(5): p. 1017-1026
    [PMID:29462472]