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 Carubv10015685m
Common NameCARUB_v10015685mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family GRAS
Protein Properties Length: 406aa    MW: 45712.8 Da    PI: 5.8757
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10015685mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS445.53.5e-136454054374
             GRAS   4 lLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshlt 97 
                      +L++cA+avs+++l +a++++ +l+ ++s +g p+qRl ay++e+L arla s+s++yk+l+++e +   s e l+++ +++ev+P+lkf+++ 
  Carubv10015685m  45 VLVACAKAVSENNLLMARWCMGELRGMVSISGAPIQRLGAYMLEGLVARLAASGSSIYKSLQSREPE---SYEFLSYVYVLHEVCPYLKFGYMS 135
                      79****************************************************************9...9*********************** PP

             GRAS  98 aNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledlel 191
                      aN aI ea++ e+r+HiiDf+i+qG QW++L+qa+a+Rp+g+p++RiTg+g+        l ++++rL+k+A++++vpf+fn+ +++   ++e+
  Carubv10015685m 136 ANGAIAEAMKDEKRIHIIDFQIGQGSQWISLIQAFAARPGGAPNIRITGIGD-----VSVLVTVKRRLEKLAKKFDVPFKFNA-ISRPSYEVEV 223
                      ****************************************************.....89************************.799******* PP

             GRAS 192 eeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikv 285
                      e+L+v++gEal Vn++++lh+l+desvs+e++rd+vL++vkslsPkvv++veqe+++n+++F+ rfle+l+yy+a+f+s+++ lpr+++eri++
  Carubv10015685m 224 ENLDVREGEALGVNFAYMLHHLPDESVSMENHRDRVLRMVKSLSPKVVTLVEQECNTNTSPFFPRFLETLSYYTAMFESIDVMLPRNHKERINI 317
                      ********************************************************************************************** PP

             GRAS 286 ErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374
                      E+++l+r++vn++acegaer+erhe l+kW++r+++aGF+p+pls+ + +++++l+r ++ +gy +ee++g+l+lgW+dr Lvs +aW+
  Carubv10015685m 318 EQHCLARDVVNIIACEGAERIERHELLGKWKSRFSMAGFEPYPLSSIISATIRALMRDYS-NGYVIEESDGALYLGWMDRILVSSCAWK 405
                      ***********************************************************9.9**************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098565.14516386IPR005202Transcription factor GRAS
PfamPF035141.2E-13345405IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
Sequence ? help Back to Top
Protein Sequence    Length: 406 aa     Download sequence    Send to blast
MLQPLPEIAE SINDAICHEL SMWPEDANDL LLIVEAISRG DLKWVLVACA KAVSENNLLM  60
ARWCMGELRG MVSISGAPIQ RLGAYMLEGL VARLAASGSS IYKSLQSREP ESYEFLSYVY  120
VLHEVCPYLK FGYMSANGAI AEAMKDEKRI HIIDFQIGQG SQWISLIQAF AARPGGAPNI  180
RITGIGDVSV LVTVKRRLEK LAKKFDVPFK FNAISRPSYE VEVENLDVRE GEALGVNFAY  240
MLHHLPDESV SMENHRDRVL RMVKSLSPKV VTLVEQECNT NTSPFFPRFL ETLSYYTAMF  300
ESIDVMLPRN HKERINIEQH CLARDVVNII ACEGAERIER HELLGKWKSR FSMAGFEPYP  360
LSSIISATIR ALMRDYSNGY VIEESDGALY LGWMDRILVS SCAWK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A3e-63464058375GRAS family transcription factor containing protein, expressed
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in plant development. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10015685m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0069550.0AC006955.6 Arabidopsis thaliana chromosome 2 clone F28I8 map RNS1, complete sequence.
GenBankAC0072110.0AC007211.6 Arabidopsis thaliana chromosome 2 BAC F1O13 genomic sequence, complete sequence.
GenBankAF2107320.0AF210732.1 Arabidopsis thaliana scarecrow-like 21 (SCL21) mRNA, complete cds.
GenBankAK1752100.0AK175210.1 Arabidopsis thaliana mRNA for putative SCARECROW gene regulator, complete cds, clone: RAFL21-63-H23.
GenBankBT0264550.0BT026455.1 Arabidopsis thaliana At2g04890 mRNA, complete cds.
GenBankCP0026850.0CP002685.1 Arabidopsis thaliana chromosome 2, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006299515.10.0scarecrow-like protein 21
SwissprotQ9S7H50.0SCL21_ARATH; Scarecrow-like protein 21
TrEMBLR0I7H60.0R0I7H6_9BRAS; Uncharacterized protein
STRINGXP_006299515.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM62128141
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G04890.10.0SCARECROW-like 21
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]