PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Itr_sc000041.1_g00016.1
Organism
Ipomoea trifida
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea
Family GRAS
Protein Properties Length: 534aa    MW: 59675.7 Da    PI: 6.1218
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Itr_sc000041.1_g00016.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS463.11.6e-1411645341374
                     GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfse 86 
                              l+++L+ cA+avs++dl  aq+l+++l++++s +g+p+qRl ay++e+L arla s+s++yk+l+++e +   s e l+++++++e
  Itr_sc000041.1_g00016.1 164 LKQVLIPCAKAVSDNDLLTAQWLMSELRQMVSVSGEPIQRLGAYMLEGLVARLAASGSSIYKSLRCKEPT---SFELLSYMHILYE 246
                              5799*****************************************************************9...9************ PP

                     GRAS  87 vsPilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAe 170
                              v+P++kf+++ aN aI ea++ e+rvHiiDf+i+qG QW++L+qa+a+Rp+gpp++RiTg+++++ +  ++  l+ +g+rL+k+Ae
  Itr_sc000041.1_g00016.1 247 VCPYFKFGYMSANGAIAEAMKDENRVHIIDFQINQGSQWITLIQAFAARPGGPPHIRITGIDDSSLSnaQSGGLSLVGKRLSKLAE 332
                              ***************************************************************877788999************** PP

                     GRAS 171 elgvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFler 256
                              +++vpfef++ +a   +d++le+L ++pgEalaVn++++lh+++desvs++++rde+L+lvksl+Pkvv++veqe+++n++ F+ r
  Itr_sc000041.1_g00016.1 333 SFNVPFEFHA-AAIPGSDIHLENLGIQPGEALAVNFAYMLHHIPDESVSTQNHRDELLRLVKSLNPKVVTLVEQESNTNTSAFFPR 417
                              **********.899************************************************************************ PP

                     GRAS 257 flealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllr 342
                              fle+l+yy+a+f+s++++lpr+++eri+vE+++l+r++vn++aceg er+erhe l+kW++r+++aGF+p+pls+ +++++k ll+
  Itr_sc000041.1_g00016.1 418 FLETLDYYTAMFESIDVTLPRDHKERINVEQHCLARDVVNIIACEGIERVERHELLGKWKSRFRMAGFSPYPLSSVVNATIKKLLE 503
                              ************************************************************************************** PP

                     GRAS 343 kvksdgyrveeesgslvlgWkdrpLvsvSaWr 374
                               +++  yr+ee++g+l+lgW++r Lv+ +aW+
  Itr_sc000041.1_g00016.1 504 SYSD-KYRLEERNGALYLGWMNRDLVASCAWK 534
                              ***5.5*************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098570.706138515IPR005202Transcription factor GRAS
PfamPF035145.5E-139164534IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009640Biological Processphotomorphogenesis
GO:0005737Cellular Componentcytoplasm
GO:0004871Molecular Functionsignal transducer activity
Sequence ? help Back to Top
Protein Sequence    Length: 534 aa     Download sequence    Send to blast
MQAAQRLRRT GMSNVLCYQP VQKADPYQLS YDNTNGASSF HASRNLYCTL ESSSVGESRA  60
LYNSPSAVCF STNGSPMSQQ DSCSYPLELH HSPDNNYGSP NISGSCITDD MNSFIHKLKE  120
LETVMLGPDS DILGRYDNTF PSSIASPEID SWRQMMEAMP RGDLKQVLIP CAKAVSDNDL  180
LTAQWLMSEL RQMVSVSGEP IQRLGAYMLE GLVARLAASG SSIYKSLRCK EPTSFELLSY  240
MHILYEVCPY FKFGYMSANG AIAEAMKDEN RVHIIDFQIN QGSQWITLIQ AFAARPGGPP  300
HIRITGIDDS SLSNAQSGGL SLVGKRLSKL AESFNVPFEF HAAAIPGSDI HLENLGIQPG  360
EALAVNFAYM LHHIPDESVS TQNHRDELLR LVKSLNPKVV TLVEQESNTN TSAFFPRFLE  420
TLDYYTAMFE SIDVTLPRDH KERINVEQHC LARDVVNIIA CEGIERVERH ELLGKWKSRF  480
RMAGFSPYPL SSVVNATIKK LLESYSDKYR LEERNGALYL GWMNRDLVAS CAWK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A2e-621665346375GRAS family transcription factor containing protein, expressed
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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019162995.10.0PREDICTED: scarecrow-like protein 21 isoform X2
SwissprotQ9LDL70.0PAT1_ARATH; Scarecrow-like transcription factor PAT1
TrEMBLA0A1J6I0730.0A0A1J6I073_NICAT; Scarecrow-like transcription factor pat1
STRINGXP_009761823.10.0(Nicotiana sylvestris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA68124111
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]