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.010G028800.1
Common NameB456_010G028800, LOC105772291
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 MYB
Protein Properties Length: 208aa    MW: 23335.6 Da    PI: 8.4643
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.010G028800.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding51.91.7e-161462148
                        TSSS-HHHHHHHHHHHHHTTTT.-HHHHHHHHTTTS-HHHHHHHHHHHT CS
     Myb_DNA-binding  1 rgrWTteEdellvdavkqlGgg.tWktIartmgkgRtlkqcksrwqkyl 48
                        +g+W++eEd +l+ +++ +G+g +W + ++++g++R++k+c++rw++yl
  Gorai.010G028800.1 14 KGPWSPEEDAKLKAYIEHYGTGgNWISLPQKIGLKRCGKSCRLRWLNYL 62
                        79*********************************************97 PP
2Myb_DNA-binding40.46.7e-1369111246
                         SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
     Myb_DNA-binding   2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                         g +++eEde++  +    G++ W+ Ia+ ++ gRt++++k++w++
  Gorai.010G028800.1  69 GGFSEEEDEIICSLYVSIGSR-WSIIAAQLP-GRTDNDIKNYWNT 111
                         569******************.*********.***********97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129415.275962IPR017930Myb domain
SuperFamilySSF466892.21E-2711109IPR009057Homeodomain-like
SMARTSM007171.3E-121364IPR001005SANT/Myb domain
PfamPF002492.1E-151462IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.605.3E-251569IPR009057Homeodomain-like
CDDcd001671.05E-91662No hitNo description
PROSITE profilePS5129422.07163117IPR017930Myb domain
SMARTSM007172.9E-1167115IPR001005SANT/Myb domain
PfamPF002492.7E-1169111IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.603.6E-2470117IPR009057Homeodomain-like
CDDcd001672.40E-871113No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 208 aa     Download sequence    Send to blast
MGRAPCCDKA NVKKGPWSPE EDAKLKAYIE HYGTGGNWIS LPQKIGLKRC GKSCRLRWLN  60
YLRPNIKHGG FSEEEDEIIC SLYVSIGSRW SIIAAQLPGR TDNDIKNYWN TRLKKKLLGR  120
YLRPEPPFPV VPVPYSSQEQ SIQFTNSQCS VVDGANMEQH MLQGQTSSSS LNGMGLLYGE  180
DIINDTSSLV CLGMFQHYAF NDRISLQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A5e-26141177108B-MYB
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In roots, expressed in endodermal cells from the late elongation zones to the differentiation zone and, to a lower extent, in endodermal cells of the meristematic zone. {ECO:0000269|PubMed:26124109, ECO:0000269|PubMed:26371322}.
UniprotTISSUE SPECIFICITY: Expressed in leaves, roots (endodermis-specific) and seedlings. {ECO:0000269|PubMed:16461581, ECO:0000269|PubMed:26124109, ECO:0000269|PubMed:26371322, ECO:0000269|PubMed:9839469}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factors that activates genes required for endodermal differentiation but represses genes involved in proliferative divisions, thus regulating the transition from proliferation to differentiation in root endodermis (PubMed:26371322). Required for Casparian strip formation by positively regulating the expression of the Casparian strip genes CASP1, PER64 and ESB1 and other endodermis-specific genes, thus triggering correct localized lignin biosynthesis in root endodermis and subsequently regulating global ion homeostasis (PubMed:26124109, PubMed:26371322). {ECO:0000269|PubMed:26124109, ECO:0000269|PubMed:26371322}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Directly up-regulated by SCARECROW (SCR), as part of the differentiation program controlled by SHORT-ROOT (SHR). {ECO:0000269|PubMed:24517883, ECO:0000269|PubMed:26371322}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKM0527240.0KM052724.1 Gossypium hirsutum RAX-like transcription factor RAX5 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001314346.11e-155transcription factor RAX3-like
RefseqXP_012449046.11e-155PREDICTED: transcription factor RAX3-like
SwissprotQ9FKL24e-80MYB36_ARATH; Transcription factor MYB36
TrEMBLA0A089NBF51e-154A0A089NBF5_GOSHI; RAX-like transcription factor RAX5
TrEMBLA0A0D2V4U31e-154A0A0D2V4U3_GOSRA; Uncharacterized protein
STRINGGorai.010G028800.11e-154(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM4282646
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G49690.13e-78myb domain protein 84
Publications ? help Back to Top
  1. 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]
  2. Fernández-Marcos M, et al.
    Control of Arabidopsis lateral root primordium boundaries by MYB36.
    New Phytol., 2017. 213(1): p. 105-112
    [PMID:27891649]