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.004G172700.1
Common NameB456_004G172700, LOC105791777
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: 328aa    MW: 36778.1 Da    PI: 6.5087
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.004G172700.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding48.52e-152370148
                        TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
     Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                        +g W++eEde+l ++    G g+W+ Ia+  g+ R++k+c++rw +yl
  Gorai.004G172700.1 23 KGLWSPEEDEKLMKYMLTNGQGCWSDIAKNAGLQRCGKSCRLRWINYL 70
                        678*******************************************97 PP
2Myb_DNA-binding506.7e-1676120147
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
     Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                         rg+++ +E+el+++++  lG++ W+ Ia++++ gRt++++k++w++ 
  Gorai.004G172700.1  76 RGAFSLQEEELIIHLHSILGNR-WSQIAARLP-GRTDNEIKNFWNST 120
                         89********************.*********.***********986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.2E-231773IPR009057Homeodomain-like
PROSITE profilePS5129417.7881870IPR017930Myb domain
SuperFamilySSF466891.64E-2820117IPR009057Homeodomain-like
SMARTSM007171.3E-112272IPR001005SANT/Myb domain
PfamPF002492.1E-142370IPR001005SANT/Myb domain
CDDcd001671.15E-92670No hitNo description
PROSITE profilePS5129425.12471125IPR017930Myb domain
Gene3DG3DSA:1.10.10.602.7E-2574126IPR009057Homeodomain-like
SMARTSM007171.2E-1575123IPR001005SANT/Myb domain
PfamPF002492.2E-1476120IPR001005SANT/Myb domain
CDDcd001671.03E-1078121No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:2000652Biological Processregulation of secondary cell wall biogenesis
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 328 aa     Download sequence    Send to blast
MRKPDPNMPK TNTNTTNKMK LRKGLWSPEE DEKLMKYMLT NGQGCWSDIA KNAGLQRCGK  60
SCRLRWINYL RPDLKRGAFS LQEEELIIHL HSILGNRWSQ IAARLPGRTD NEIKNFWNST  120
LKKRLKNNTS TSSSPNNSDS SEPRDVVGGI FPLHEHHAMT FCMDSISSSS TISMPPMGTG  180
NQFDPFPLLN INRYDKTGGA AGLLDLPTCL TQGGLGEALY GDYGVLEPGK IALEGDFSLP  240
PLESRSIEES NAAINSIDRK SNNNNHHHHH NNNTCFNNTD QSFKVGEAFG LENHHWEAEN  300
LRMGEWDLEG LMDNISSFPN FLDFQVE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1h8a_C6e-272112525128MYB TRANSFORMING PROTEIN
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed specifically in fiber and vessel cells that are undergoing secondary wall thickening in floral stems. Expressed in vessels but not in xylary fibers in the developing secondary xylem of roots. {ECO:0000269|PubMed:19808805}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that acts as molecular switch in the NAC012/SND1-mediated transcriptional network regulating secondary wall biosynthesis. Is directly activated by NAC012/SND1 and its close homologs, including NAC043/NST1, NAC066/NST2, NAC101/VND6 and NAC030/VND7. Is required for functional expression of a number of secondary wall-associated transcription factors and secondary wall biosynthetic genes involved in cellulose, xylan and lignin synthesis. Functions redundantly with MYB46 in the transcriptional regulatory cascade leading to secondary wall formation in fibers and vessels (PubMed:19808805). Transcription activator that binds to the DNA consensus sequence 5'-ACC[AT]A[AC][TC]-3', designated as the secondary wall MYB-responsive element (SMRE). Regulates directly numerous transcription factors and a number of genes involved in secondary wall biosynthesis that contain SMRE elements in their promoters (PubMed:22197883). {ECO:0000269|PubMed:19808805, ECO:0000269|PubMed:22197883}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00336DAPTransfer from AT3G08500Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJX6144040.0JX614404.1 Gossypium hirsutum clone NBRI_GE57753 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012475461.10.0PREDICTED: transcription factor MYB46
SwissprotQ9C6U12e-88MYB83_ARATH; Transcription factor MYB83
TrEMBLA0A0D2R6G80.0A0A0D2R6G8_GOSRA; Uncharacterized protein
STRINGGorai.004G172700.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM70772642
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08500.13e-85myb domain protein 83
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. Vargas L, et al.
    Improving total saccharification yield of Arabidopsis plants by vessel-specific complementation of caffeoyl shikimate esterase (cse) mutants.
    Biotechnol Biofuels, 2016. 9: p. 139
    [PMID:27390589]
  3. Piya S,Kihm C,Rice JH,Baum TJ,Hewezi T
    Cooperative Regulatory Functions of miR858 and MYB83 during Cyst Nematode Parasitism.
    Plant Physiol., 2017. 174(3): p. 1897-1912
    [PMID:28512179]