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 Ciclev10006467m
Common NameCICLE_v10006467mg
Organism
Citrus clementina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family HD-ZIP
Protein Properties Length: 711aa    MW: 79724 Da    PI: 6.7577
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10006467mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox60.92e-193080656
                     S--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
         Homeobox  6 tftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                     ++t++q+++Le++F+ +++p++++r++L+k+lgL+ +q+k+WFqN+R++ k
  Ciclev10006467m 30 RHTTHQIQTLEAFFKDCPHPDENQRRQLSKELGLDLKQIKFWFQNKRTQTK 80
                     689********************************************9987 PP
2START131.31.1e-412194423206
                      HHHHHHHHHHHHHHC-TT-EEEE.EXCCTTEEEEEEESSS............SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEE CS
            START   3 aeeaaqelvkkalaeepgWvkss.esengdevlqkfeeskv...........dsgealrasgvvdmvlallveellddkeqWdetla....kae 80 
                      a  a++el++++  +ep+W k + + +++ +v+  ++ +kv            ++e ++ sg+v+m+ ++lve lld+  +W   ++    ka 
  Ciclev10006467m 219 ATNAMDELIRLMRINEPLWIKPPsSTNIERYVIHPESYEKVfpranhfktssARVESSKYSGMVTMNGMQLVEMLLDSD-KWVDLFPtivsKAR 311
                      5689*******************54444444444444455599999*****99**************************.99999999999*** PP

                      EEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEE CS
            START  81 tlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwv 167
                      t++v+++g      g lqlm  ++  lsplv+ R+++f+R+++q + g wvivdvS + ++++ +ss++ R   lpSg++i+++ ng s+vtw+
  Ciclev10006467m 312 TIQVLEPGingnrnGCLQLMHEQMHILSPLVSpREYYFLRHCQQIELGLWVIVDVSYEWPKDNISSSHCWR---LPSGFMIQDMTNGCSNVTWL 402
                      *****************************9999*****************************986777776...******************** PP

                      E-EE--SSXX.HHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
            START 168 ehvdlkgrlp.hwllrslvksglaegaktwvatlqrqcek 206
                      ehv++++++  h l+r l+ +  a ga +wv tlqr ce+
  Ciclev10006467m 403 EHVEVDDKTQtHRLYRDLICNNCAYGAERWVVTLQRTCER 442
                      *******9998***************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.13E-17883IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.8E-191176IPR009057Homeodomain-like
SMARTSM003899.9E-172286IPR001356Homeobox domain
PROSITE profilePS5007115.6772282IPR001356Homeobox domain
CDDcd000861.51E-162983No hitNo description
PfamPF000467.4E-173080IPR001356Homeobox domain
PROSITE patternPS0002705780IPR017970Homeobox, conserved site
PROSITE profilePS5084840.482208445IPR002913START domain
SuperFamilySSF559613.02E-30210443No hitNo description
CDDcd088751.12E-99212441No hitNo description
SMARTSM002344.4E-29217442IPR002913START domain
PfamPF018523.3E-35219442IPR002913START domain
Gene3DG3DSA:3.30.530.201.4E-5265406IPR023393START-like domain
SuperFamilySSF559612.2E-15468701No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 711 aa     Download sequence    Send to blast
MDFVMGNSGD LGDEQDATNS QNKGKITCHR HTTHQIQTLE AFFKDCPHPD ENQRRQLSKE  60
LGLDLKQIKF WFQNKRTQTK AQNERANNSV LRAENERVHC ENLAIREALK NVICPSCGGP  120
PFGIEERQRS LQKLQLENSQ LKEEHEKVSN LLAKYIGKPI CQMNSSLMPS LPGSAILEHQ  180
NVLPPPILPV HQEMDIGLDL NLQFKGINDL EQSLMMETAT NAMDELIRLM RINEPLWIKP  240
PSSTNIERYV IHPESYEKVF PRANHFKTSS ARVESSKYSG MVTMNGMQLV EMLLDSDKWV  300
DLFPTIVSKA RTIQVLEPGI NGNRNGCLQL MHEQMHILSP LVSPREYYFL RHCQQIELGL  360
WVIVDVSYEW PKDNISSSHC WRLPSGFMIQ DMTNGCSNVT WLEHVEVDDK TQTHRLYRDL  420
ICNNCAYGAE RWVVTLQRTC ERLLAENSQS IHEVGGVINL PQGRKSLMKL AHRMVKNFCS  480
MLSMSGKLDF PQLSEVNNSG VRVSVRKSLG HGQPSGIVVS AATSLWLPLP SHNVFNFFKD  540
EKMRVQWDVL SNGSPVQEIV HISNGSHLGN CTSIIWPFIP TENNMLMLQE SCIDQLGSMV  600
VYAPIDIPSM NLAISGDDSS NIPILPSGFV ISRDGRQRDH YRASTSTETG FGTGTGIGTG  660
GSLLTVAFQI LVSSPSSSKE LNMESVATVN TLISSTVQRI KATLNCSNLD *
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During embryo development, expressed in all cells at the 4- and 16-cell embryo stages. Expression is restricted to the protoderm from the globular stage onward. {ECO:0000269|PubMed:25564655}.
UniprotTISSUE SPECIFICITY: Expressed in apical meristems and young epidermal tissue including trichomes and stipules. Expressed in lateral root tips, the L1 layer of apical inflorescence meristems and early flower primordia, carpel and petal epidermis, stigma papillae, ovule primordia, nucellus and embryo. {ECO:0000269|PubMed:16778018}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
UniProtTranscription factor which acts as positive regulator of drought stress tolerance. Can transactivate CIPK3, NCED3 and ERECTA (PubMed:18451323). Transactivates several cell-wall-loosening protein genes by directly binding to HD motifs in their promoters. These target genes play important roles in coordinating cell-wall extensibility with root development and growth (PubMed:24821957). Transactivates CYP74A/AOS, AOC3, OPR3 and 4CLL5/OPCL1 genes by directly binding to HD motifs in their promoters. These target genes are involved in jasmonate (JA) biosynthesis, and JA signaling affects root architecture by activating auxin signaling, which promotes lateral root formation (PubMed:25752924). Acts as negative regulator of trichome branching (PubMed:16778018, PubMed:24824485). Required for the establishment of giant cell identity on the abaxial side of sepals (PubMed:23095885). May regulate cell differentiation and proliferation during root and shoot meristem development (PubMed:25564655). {ECO:0000269|PubMed:16778018, ECO:0000269|PubMed:18451323, ECO:0000269|PubMed:23095885, ECO:0000269|PubMed:24821957, ECO:0000269|PubMed:24824485, ECO:0000269|PubMed:25564655, ECO:0000269|PubMed:25752924}.
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_006421085.10.0homeobox-leucine zipper protein ROC8
SwissprotQ69T580.0ROC8_ORYSJ; Homeobox-leucine zipper protein ROC8
SwissprotQ9FX310.0HDG11_ARATH; Homeobox-leucine zipper protein HDG11
TrEMBLA0A2H5PLL60.0A0A2H5PLL6_CITUN; Uncharacterized protein
TrEMBLV4S6730.0V4S673_9ROSI; Uncharacterized protein
STRINGXP_006421085.10.0(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM30042665
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G73360.10.0homeodomain GLABROUS 11
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. Khosla A, et al.
    HD-Zip Proteins GL2 and HDG11 Have Redundant Functions in Arabidopsis Trichomes, and GL2 Activates a Positive Feedback Loop via MYB23.
    Plant Cell, 2014. 26(5): p. 2184-2200
    [PMID:24824485]
  3. Horstman A, et al.
    AIL and HDG proteins act antagonistically to control cell proliferation.
    Development, 2015. 142(3): p. 454-64
    [PMID:25564655]
  4. Cai XT,Xu P,Wang Y,Xiang CB
    Activated expression of AtEDT1/HDG11 promotes lateral root formation in Arabidopsis mutant edt1 by upregulating jasmonate biosynthesis.
    J Integr Plant Biol, 2015. 57(12): p. 1017-30
    [PMID:25752924]
  5. Yu LH, et al.
    Arabidopsis EDT1/HDG11 improves drought and salt tolerance in cotton and poplar and increases cotton yield in the field.
    Plant Biotechnol. J., 2016. 14(1): p. 72-84
    [PMID:25879154]
  6. Zhu Z, et al.
    Overexpression of AtEDT1/HDG11 in Chinese Kale (Brassica oleracea var. alboglabra) Enhances Drought and Osmotic Stress Tolerance.
    Front Plant Sci, 2016. 7: p. 1285
    [PMID:27625663]
  7. Liu Y, et al.
    Overexpression of AtEDT1 promotes root elongation and affects medicinal secondary metabolite biosynthesis in roots of transgenic Salvia miltiorrhiza.
    Protoplasma, 2017. 254(4): p. 1617-1625
    [PMID:27915455]
  8. Ueda M, et al.
    Transcriptional integration of paternal and maternal factors in the Arabidopsis zygote.
    Genes Dev., 2017. 31(6): p. 617-627
    [PMID:28404632]
  9. Lung SC, et al.
    Arabidopsis ACYL-COA-BINDING PROTEIN1 interacts with STEROL C4-METHYL OXIDASE1-2 to modulate gene expression of homeodomain-leucine zipper IV transcription factors.
    New Phytol., 2018. 218(1): p. 183-200
    [PMID:29288621]
  10. Zheng G, et al.
    Over-Expression of Arabidopsis EDT1 Gene Confers Drought Tolerance in Alfalfa (Medicago sativa L.).
    Front Plant Sci, 2017. 8: p. 2125
    [PMID:29326737]