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 Csa20g025660.1
Organism
Camelina sativa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina
Family GRAS
Protein Properties Length: 962aa    MW: 105657 Da    PI: 4.497
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa20g025660.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS406.72.3e-1241635091361
            GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfsh 95 
                     lv++L++cAeav++++l+la+al++++  la++++ +m ++a+yf+eALa+r++r        ++ps+++ + s eel  +  f++ sP+lkf+h
  Csa20g025660.1 163 LVQALVACAEAVQQENLSLADALVKHVGSLAASQAGAMGKVATYFAEALARRIYR--------IHPSSAAVDPSFEEL-LQMNFYDSSPYLKFAH 248
                     689****************************************************........555555543444443.4446************ PP

            GRAS  96 ltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledle 190
                     +taNqaIleav  ++ vH+iD++++qG+QWpaL+qaLa Rp+gpps+R+Tgvg+p+  ++e ++e+g++La++A+++gv+fefn+l+++rl+dle
  Csa20g025660.1 249 FTANQAILEAVTMARSVHVIDLGLNQGMQWPALMQALALRPGGPPSFRLTGVGAPS--NREGIQELGWKLAQLAQAVGVEFEFNALTTERLSDLE 341
                     ******************************************************88..9************************************ PP

            GRAS 191 leeLrvkp.gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerik 284
                     +++++++p  E+l+Vn+v++lh +l++++s+e+    +L +vk ++P +v+vveqea+hn+  Fl+rf eal+yys+lfdsle ++     ++++
  Csa20g025660.1 342 PDMFETRPeSETLVVNSVFELHPVLAQPGSIEE----LLATVKAVKPSIVTVVEQEANHNGVVFLDRFNEALHYYSSLFDSLEDSVVIP-GQDRV 431
                     ********9************************....*********************************************9998655.55667 PP

            GRAS 285 vErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlg 361
                     +++++lgr+i nvva+eg+er+erhetl +Wr+r+++aGF pv+l+++a kqa+lll+ ++ +dgyrvee++gsl+l 
  Csa20g025660.1 432 MSEVYLGRQILNVVAAEGTERVERHETLDQWRRRMRSAGFDPVNLGYDAFKQASLLLALFGgGDGYRVEENDGSLMLA 509
                     78888***********************************************************************97 PP
2GRAS434.48.5e-1335959541374
            GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfsh 95 
                     lv++L++cAeav++++l+la+al++++  la++++ +m ++a+yf+eALa+r++r        ++ps+++ + s eel  +  f++ sP+lkf+h
  Csa20g025660.1 595 LVQALVACAEAVQQENLSLADALVKHVGSLAASQAGAMGKVATYFAEALARRIYR--------IHPSSAAVDPSFEEL-LQMNFYDSSPYLKFAH 680
                     689****************************************************........555555543444443.4446************ PP

            GRAS  96 ltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledle 190
                     +taNqaIleav  ++ vH+iD++++qG+QWpaL+qaLa Rp+gpps+R+Tgvg+p+  ++e ++e+g++La++A+++gv+fefn+l+++rl+dle
  Csa20g025660.1 681 FTANQAILEAVTMARSVHVIDLGLNQGMQWPALMQALALRPGGPPSFRLTGVGAPS--NREGIQELGWKLAQLAQAVGVEFEFNALTTERLSDLE 773
                     ******************************************************88..9************************************ PP

            GRAS 191 leeLrvkp.gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerik 284
                     +++++++p  E+l+Vn+v++lh +l++++s+e+    +L +vk ++P +v+vveqea+hn+  Fl+rf eal+yys+lfdsle ++     ++++
  Csa20g025660.1 774 PDMFETRPeSETLVVNSVFELHPVLAQPGSIEE----LLATVKAVKPSIVTVVEQEANHNGVVFLDRFNEALHYYSSLFDSLEDSVVIP-GQDRV 863
                     ********9************************....*********************************************9998655.55667 PP

            GRAS 285 vErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374
                     +++++lgr+i nvva+eg+er+erhetl +Wr+r+++aGF pv+l+++a kqa+lll+ ++ +dgyrvee++gsl+l W+++pL+++SaW+
  Csa20g025660.1 864 MSEVYLGRQILNVVAAEGTERVERHETLDQWRRRMRSAGFDPVNLGYDAFKQASLLLALFGgGDGYRVEENDGSLMLAWQTKPLIAASAWK 954
                     78888*************************************************************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF120412.8E-2938104IPR021914Transcriptional factor DELLA, N-terminal
SMARTSM011292.4E-3438111No hitNo description
PROSITE profilePS5098564.989137501IPR005202Transcription factor GRAS
PfamPF035147.8E-122163509IPR005202Transcription factor GRAS
SMARTSM011290.33487543No hitNo description
PfamPF120411.1E-8507536IPR021914Transcriptional factor DELLA, N-terminal
PROSITE profilePS5098564.989569933IPR005202Transcription factor GRAS
PfamPF035142.9E-130595954IPR005202Transcription factor GRAS
Sequence ? help Back to Top
Protein Sequence    Length: 962 aa     Download sequence    Send to blast
MKRSHQETYL EQQEAPSMAE YGKKLQSSSV GGGDDNIDEL LAALGYKVRS SDMADVANKL  60
EQLEMVLSND VVGSSNSFLN DTVHYNPSDL SGWAQTMLSG LSYYPDLDPT RVCDLRPITD  120
DDECCCSSNS SNNKRIRLGP WYDSVSSEST RSVVLVEETG IRLVQALVAC AEAVQQENLS  180
LADALVKHVG SLAASQAGAM GKVATYFAEA LARRIYRIHP SSAAVDPSFE ELLQMNFYDS  240
SPYLKFAHFT ANQAILEAVT MARSVHVIDL GLNQGMQWPA LMQALALRPG GPPSFRLTGV  300
GAPSNREGIQ ELGWKLAQLA QAVGVEFEFN ALTTERLSDL EPDMFETRPE SETLVVNSVF  360
ELHPVLAQPG SIEELLATVK AVKPSIVTVV EQEANHNGVV FLDRFNEALH YYSSLFDSLE  420
DSVVIPGQDR VMSEVYLGRQ ILNVVAAEGT ERVERHETLD QWRRRMRSAG FDPVNLGYDA  480
FKQASLLLAL FGGGDGYRVE ENDGSLMLAF LNDTVHYNPS DLSGWAQTML SGLSYYPDLD  540
PTRVCDLRPI TDDDECCCSS NSSNNKRIRL GPWYDSVSSE STRSVVLVEE TGIRLVQALV  600
ACAEAVQQEN LSLADALVKH VGSLAASQAG AMGKVATYFA EALARRIYRI HPSSAAVDPS  660
FEELLQMNFY DSSPYLKFAH FTANQAILEA VTMARSVHVI DLGLNQGMQW PALMQALALR  720
PGGPPSFRLT GVGAPSNREG IQELGWKLAQ LAQAVGVEFE FNALTTERLS DLEPDMFETR  780
PESETLVVNS VFELHPVLAQ PGSIEELLAT VKAVKPSIVT VVEQEANHNG VVFLDRFNEA  840
LHYYSSLFDS LEDSVVIPGQ DRVMSEVYLG RQILNVVAAE GTERVERHET LDQWRRRMRS  900
AGFDPVNLGY DAFKQASLLL ALFGGGDGYR VEENDGSLML AWQTKPLIAA SAWKLAAELR  960
R*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A7e-6315795313378Protein SCARECROW
5b3h_A6e-6315795312377Protein SCARECROW
5b3h_D6e-6315795312377Protein SCARECROW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcriptional regulator that acts as a repressor of the gibberellin (GA) signaling pathway. No effect of the BOI proteins on its stability. Probably acts by participating in large multiprotein complexes that repress transcription of GA-inducible genes. Its activity may be regulated by phytohormones such as auxin and ethylene (By similarity). {ECO:0000250, ECO:0000269|PubMed:12610625, ECO:0000269|PubMed:14615596}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCsa20g025660.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1172260.0AK117226.1 Arabidopsis thaliana At5g17490 mRNA for RGA-like protein, complete cds, clone: RAFL16-78-A02.
GenBankAL3911500.0AL391150.1 Arabidopsis thaliana DNA chromosome 5, BAC clone K3M16 (ESSA project).
GenBankBT0059050.0BT005905.1 Arabidopsis thaliana At5g17490 gene, complete cds.
GenBankCP0026880.0CP002688.1 Arabidopsis thaliana chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019097371.10.0PREDICTED: DELLA protein RGL3-like, partial
SwissprotQ9LF530.0RGL3_ARATH; DELLA protein RGL3
TrEMBLR0H0W30.0R0H0W3_9BRAS; Uncharacterized protein
STRINGXP_010492705.10.0(Camelina sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM83728121
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G17490.10.0RGA-like protein 3
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. Wild M,Achard P
    The DELLA protein RGL3 positively contributes to jasmonate/ethylene defense responses.
    Plant Signal Behav, 2013. 8(4): p. e23891
    [PMID:23425858]
  3. Shi H,Wei Y,Wang Q,Reiter RJ,He C
    Melatonin mediates the stabilization of DELLA proteins to repress the floral transition in Arabidopsis.
    J. Pineal Res., 2016. 60(3): p. 373-9
    [PMID:26887824]
  4. Shi H,Liu W,Wei Y,Ye T
    Integration of auxin/indole-3-acetic acid 17 and RGA-LIKE3 confers salt stress resistance through stabilization by nitric oxide in Arabidopsis.
    J. Exp. Bot., 2017. 68(5): p. 1239-1249
    [PMID:28158805]
  5. Huang KC,Lin WC,Cheng WH
    Salt hypersensitive mutant 9, a nucleolar APUM23 protein, is essential for salt sensitivity in association with the ABA signaling pathway in Arabidopsis.
    BMC Plant Biol., 2018. 18(1): p. 40
    [PMID:29490615]