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 Csa20g041020.1
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: 929aa    MW: 105171 Da    PI: 6.915
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa20g041020.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS2483.6e-761213422224
            GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshl 96 
                     +  L++cA+a+s++dl +a++++++l++++s +g+p+qRl ay++e+L a la+s+s++yk+l+  +++   s+e l+++++++ev+P++kf+++
  Csa20g041020.1 121 RADLVSCAKAMSENDLMMANSMMEKLRQMVSVSGEPIQRLGAYLLEGLVALLASSGSSIYKSLNRCPEP--ASTELLSYMHILYEVCPYFKFGYM 213
                     678************************************************************666665..499********************* PP

            GRAS  97 taNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefnvlvakrledl 189
                      aN aI ea+++e+rvHiiDf+i+qG QW++L+qa+a+Rp+gpp++RiTg+++ +s   +   l+ +g+rLak+A++++vpfefn+ v+ + +++
  Csa20g041020.1 214 SANGAIAEAMKEENRVHIIDFQIGQGSQWVTLIQAFAARPGGPPRIRITGIDDTTSAyaRGGGLSIVGNRLAKLAKQFNVPFEFNP-VSVSASEV 307
                     *****************************************************998899999************************.7999**** PP

            GRAS 190 eleeLrvkpgEalaVnlvlqlhrlldesvsleser 224
                     ++++L v+pgEalaVn+++ lh+++desvs+e++r
  Csa20g041020.1 308 KPKNLGVRPGEALAVNFAFVLHHMPDESVSTENHR 342
                     *******************************9965 PP
2GRAS253.29.9e-78363573156368
            GRAS 156 eeleetgerLakfAeelgvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhns 250
                       l+ +g+rLak+A++++vpfefn+ v+ + +++++++L v+pgEalaVn+++ lh+++desvs+e++rd++L++vkslsPkvv++veqe+++n+
  Csa20g041020.1 363 GGLSIVGNRLAKLAKQFNVPFEFNP-VSVSASEVKPKNLGVRPGEALAVNFAFVLHHMPDESVSTENHRDRLLRMVKSLSPKVVTLVEQESNTNT 456
                     56889********************.7999***************************************************************** PP

            GRAS 251 esFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk 345
                     + F+ rf+e+++yy+a+f+s++++lpr++++ri+vE+++l+r++vn++acega+r+erhe l+kW++r+e+aGF+++pls  +++++k+llr+++
  Csa20g041020.1 457 AAFFPRFMETMNYYAAMFESIDVTLPRDHKQRINVEQHCLARDVVNIIACEGADRVERHELLGKWKSRFEMAGFTSYPLSPLVNSTIKSLLRTYS 551
                     *********************************************************************************************** PP

            GRAS 346 sdgyrveeesgslvlgWkdrpLv 368
                     ++ yr+ee++g+l+lgW++r L 
  Csa20g041020.1 552 NK-YRLEERDGALYLGWMHRDLK 573
                     66.*****************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098567.00294560IPR005202Transcription factor GRAS
PfamPF035141.3E-73121342IPR005202Transcription factor GRAS
PfamPF035143.4E-75363573IPR005202Transcription factor GRAS
Gene3DG3DSA:3.80.10.101.0E-4578745IPR032675Leucine-rich repeat domain, L domain-like
PfamPF077234.9E-6694719IPR013101Leucine-rich repeat 2
Gene3DG3DSA:3.80.10.101.0E-4809832IPR032675Leucine-rich repeat domain, L domain-like
PfamPF083876.7E-11850893IPR006566FBD domain
SMARTSM005798.4E-17854928IPR006566FBD domain
Sequence ? help Back to Top
Protein Sequence    Length: 929 aa     Download sequence    Send to blast
MYKQPRQEIE AYSFEPNPSG KLRYLPVNNS RKRFCTLEPS PDSPAYNALS STATYEDTCG  60
SCVTDDLNDF KHKIKEIETV MMGPDSLDLV VDGTDSFDST ACQEINSWRS TLEAISRRDL  120
RADLVSCAKA MSENDLMMAN SMMEKLRQMV SVSGEPIQRL GAYLLEGLVA LLASSGSSIY  180
KSLNRCPEPA STELLSYMHI LYEVCPYFKF GYMSANGAIA EAMKEENRVH IIDFQIGQGS  240
QWVTLIQAFA ARPGGPPRIR ITGIDDTTSA YARGGGLSIV GNRLAKLAKQ FNVPFEFNPV  300
SVSASEVKPK NLGVRPGEAL AVNFAFVLHH MPDESVSTEN HRYGPVTENG EELISQGAYA  360
RGGGLSIVGN RLAKLAKQFN VPFEFNPVSV SASEVKPKNL GVRPGEALAV NFAFVLHHMP  420
DESVSTENHR DRLLRMVKSL SPKVVTLVEQ ESNTNTAAFF PRFMETMNYY AAMFESIDVT  480
LPRDHKQRIN VEQHCLARDV VNIIACEGAD RVERHELLGK WKSRFEMAGF TSYPLSPLVN  540
STIKSLLRTY SNKYRLEERD GALYLGWMHR DLKLLTVKTS VLSTRWRSLW LWLPRLELTW  600
SKFPNSDVFM SFGDKFFHSN RVSCIHKLNL SMSFGNVNPH FTSWIDVAVK RNFQHLQVRY  660
AFEMPLSLYT CETLVSLKIC WVALPSAEFV SLPCLKILHL ECISYPNETT FERLVSSSPV  720
LEELELRLVS SVANVFRTLD LDLSPGLFFE EEDVLSMRNS FHSFLPQISK MRDMFIHLGS  780
FQLLCEYSKL EPLPQFGYMS CLQVELYYSH LKWLPTFLES FPNLKSLILV CYNADHEEMP  840
FEEMNQVGFS TVPKCLLSSL EFVDFKVKVS GLAAGMKLVR YFLENLAILK KPTLPWHYSA  900
IQIQDDVVRI RKLLKIPRRS TECEVIFL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A2e-3212757726375Protein SCARECROW
5b3h_A3e-3212757725374Protein SCARECROW
5b3h_D3e-3212757725374Protein SCARECROW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in phytochrome A (phyA) signal transduction. {ECO:0000269|PubMed:10817761}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCsa20g041020.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF1534430.0AF153443.1 Arabidopsis thaliana phytochrome A signal transduction 1 protein (PAT1) mRNA, complete cds.
GenBankAK3172520.0AK317252.1 Arabidopsis thaliana AT5G48150 mRNA, complete cds, clone: RAFL22-43-D17.
GenBankAK3177470.0AK317747.1 Arabidopsis thaliana AT5G48150 mRNA, complete cds, clone: RAFL22-04-F15.
GenBankBT0253260.0BT025326.1 Arabidopsis thaliana At5g48150 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010493620.10.0PREDICTED: scarecrow-like transcription factor PAT1 isoform X2
RefseqXP_010493624.10.0PREDICTED: scarecrow-like transcription factor PAT1 isoform X3
RefseqXP_019097590.10.0PREDICTED: scarecrow-like transcription factor PAT1 isoform X1
RefseqXP_019097591.10.0PREDICTED: scarecrow-like transcription factor PAT1 isoform X1
RefseqXP_019097592.10.0PREDICTED: scarecrow-like transcription factor PAT1 isoform X1
RefseqXP_019097593.10.0PREDICTED: scarecrow-like transcription factor PAT1 isoform X1
SwissprotQ9LDL70.0PAT1_ARATH; Scarecrow-like transcription factor PAT1
TrEMBLR0G9L10.0R0G9L1_9BRAS; Uncharacterized protein
STRINGXP_010493624.10.0(Camelina sativa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G48150.20.0GRAS family protein
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. 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. Heyman J, et al.
    The heterodimeric transcription factor complex ERF115-PAT1 grants regeneration competence.
    Nat Plants, 2016. 2(11): p. 16165
    [PMID:27797356]