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 Gorai.002G096300.1
Common NameB456_002G096300, LOC105781454
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family GRAS
Protein Properties Length: 539aa    MW: 59845.2 Da    PI: 5.3679
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.002G096300.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS442.62.8e-1351675371374
                GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPil 91 
                         l+elL +cA+a++s+d+ +++ l+a+l++++s +g+pmqRl ay++e+L arla+s+s++ykal+++e +   s e l+++++++e++P++
  Gorai.002G096300.1 167 LKELLCTCAKAIESNDMYMTDCLIAQLRQMVSVSGEPMQRLGAYLLEGLVARLASSGSSIYKALRCKEPA---SPELLSYMHILYEICPYF 254
                         5799*****************************************************************9...9***************** PP

                GRAS  92 kfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefnv 180
                         kf+++ aN aI ea+++e+rvHiiDf+i qG QW++L++aLa R++gpps+RiTg+++p+s   +   le +g+rL+k+Ae+++vpfef++
  Gorai.002G096300.1 255 KFGYMSANGAIAEAMKEESRVHIIDFQIAQGSQWLTLINALAGRSRGPPSIRITGIDDPTSAfaRGGGLEIVGQRLRKLAESCKVPFEFHA 345
                         ************************************************************999999************************* PP

                GRAS 181 lvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsl 271
                          +a + ++++le+L ++pgEa+aVn++++lh+++desv+++++rd++L+l kslsPkvv++ve+ea++n+++F  rfle++ y+s++f+s+
  Gorai.002G096300.1 346 -AAISGTEVQLENLGIQPGEAIAVNFAMMLHHMPDESVDTQNHRDRLLRLAKSLSPKVVTLVEHEANTNTAPFIPRFLETMGYFSSIFESI 435
                         .8999************************************************************************************** PP

                GRAS 272 eaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgW 362
                         +++lpre++eri+vE+++l+reivn++aceg+er+er e ++kWr+r+ +aGF+p pls ++++++k+ll+ + +  y++ee++g l+lgW
  Gorai.002G096300.1 436 DVSLPREHKERINVEQHCLAREIVNIIACEGQERVERYELFGKWRSRFIMAGFTPSPLSPFVNATIKTLLQSYCD-KYTLEERDGVLYLGW 525
                         **************************************************************************5.5************** PP

                GRAS 363 kdrpLvsvSaWr 374
                         +dr++++ +aWr
  Gorai.002G096300.1 526 MDRAIIASCAWR 537
                         ***********8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098568.181141518IPR005202Transcription factor GRAS
PfamPF035149.7E-133167537IPR005202Transcription 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: 539 aa     Download sequence    Send to blast
MQTSQKHKIT GKCIDWPVQE LESYCWPPNQ SLEPYQSGSD DGSNSVQHSV PNLERYCTLD  60
SSSSMQNSSS TASFSPDGSP VSQQNYTYPL DLHSPENTCA SPISGSCVID NENDLGLMIR  120
QLETAMLGID SGDLDLHAIA ASGRATKVSV EAERWKYMKE MIARGDLKEL LCTCAKAIES  180
NDMYMTDCLI AQLRQMVSVS GEPMQRLGAY LLEGLVARLA SSGSSIYKAL RCKEPASPEL  240
LSYMHILYEI CPYFKFGYMS ANGAIAEAMK EESRVHIIDF QIAQGSQWLT LINALAGRSR  300
GPPSIRITGI DDPTSAFARG GGLEIVGQRL RKLAESCKVP FEFHAAAISG TEVQLENLGI  360
QPGEAIAVNF AMMLHHMPDE SVDTQNHRDR LLRLAKSLSP KVVTLVEHEA NTNTAPFIPR  420
FLETMGYFSS IFESIDVSLP REHKERINVE QHCLAREIVN IIACEGQERV ERYELFGKWR  480
SRFIMAGFTP SPLSPFVNAT IKTLLQSYCD KYTLEERDGV LYLGWMDRAI IASCAWRC*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A3e-641715378375GRAS family transcription factor containing protein, expressed
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedlings, roots, shoots, leaves, flowers and siliques. {ECO:0000269|PubMed:10341448, ECO:0000269|PubMed:18500650}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in phytochrome A (phyA) signal transduction. {ECO:0000269|PubMed:10817761}.
UniProtProbable transcription factor involved in plant development. {ECO:0000250}.
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_012461453.10.0PREDICTED: scarecrow-like transcription factor PAT1
SwissprotQ8H1250.0SCL5_ARATH; Scarecrow-like protein 5
SwissprotQ9LDL70.0PAT1_ARATH; Scarecrow-like transcription factor PAT1
TrEMBLA0A0D2M8R40.0A0A0D2M8R4_GOSRA; Uncharacterized protein
STRINGGorai.002G096300.10.0(Gossypium raimondii)
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
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. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]
  3. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  4. Heyman J, et al.
    The heterodimeric transcription factor complex ERF115-PAT1 grants regeneration competence.
    Nat Plants, 2016. 2(11): p. 16165
    [PMID:27797356]