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.004G269400.1
Common NameB456_004G269400, LOC105792785
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: 319aa    MW: 35636.6 Da    PI: 5.2698
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.004G269400.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding50.45.2e-161764148
                        TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
     Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                        rg+W++ Ed++l+  ++++G  +W++ ++  g+ R++k+c++rw +yl
  Gorai.004G269400.1 17 RGPWSPSEDLRLITFIQKHGHQNWRALPKQAGLLRCGKSCRLRWINYL 64
                        89******************************99************97 PP
2Myb_DNA-binding50.93.6e-1670115148
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
     Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                         rg++T++E++ ++++++ lG++ W++Ia++++ gRt++++k+ w+++l
  Gorai.004G269400.1  70 RGNFTQDEEDTIIRVHATLGNK-WSKIASYLP-GRTDNEIKNVWNTHL 115
                         89********************.*********.************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.605.6E-24867IPR009057Homeodomain-like
PROSITE profilePS5129416.0221264IPR017930Myb domain
SuperFamilySSF466893.07E-2915111IPR009057Homeodomain-like
SMARTSM007171.7E-121666IPR001005SANT/Myb domain
PfamPF002496.1E-151764IPR001005SANT/Myb domain
CDDcd001671.50E-91964No hitNo description
PROSITE profilePS5129424.49865119IPR017930Myb domain
Gene3DG3DSA:1.10.10.604.6E-2668119IPR009057Homeodomain-like
SMARTSM007172.2E-1469117IPR001005SANT/Myb domain
PfamPF002492.3E-1570115IPR001005SANT/Myb domain
CDDcd001674.63E-1072115No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009751Biological Processresponse to salicylic acid
GO:0009753Biological Processresponse to jasmonic acid
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: 319 aa     Download sequence    Send to blast
MAGKGRAPCC DKEKVKRGPW SPSEDLRLIT FIQKHGHQNW RALPKQAGLL RCGKSCRLRW  60
INYLRPDVKR GNFTQDEEDT IIRVHATLGN KWSKIASYLP GRTDNEIKNV WNTHLKKRLG  120
SMNGNADKKD ESMATSSSSS CVTSMSSFND KKTNEAFEMA VVSDKANHGS PSEEPEALSS  180
SSISSNVTNS NQVNVSNPEI QEGPLFNFTG CYYNTSEEVN KPETAFDIPL ESDLEFWNML  240
DSLVPFQPEG IQSHNETQCP DFGEAENKWL LYLEQELGLD PKDGGFEAEP LLVPETNGMG  300
TMGHYHNTVQ PYEPNSKQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1mse_C5e-27171194105C-Myb DNA-Binding Domain
1msf_C5e-27171194105C-Myb DNA-Binding Domain
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In nonelongating internodes, highly expressed in interfascicular fibers and xylem cells but not in parenchymatous pith cells. In elongating internodes, predominantly expressed in interfascicular fibers. Accumulates in the developing secondary xylem of roots. {ECO:0000269|PubMed:19122102}.
UniprotTISSUE SPECIFICITY: Expressed at low levels in stems, roots and siliques (PubMed:9839469). Specifically expressed in fibers and vessels undergoing secondary wall thickening, especially in inflorescence stems (PubMed:19122102). {ECO:0000269|PubMed:19122102, ECO:0000269|PubMed:9839469}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator that binds DNA to the AC cis-elements 5'-ACCTACC-3', 5'-ACCAACC-3' and 5'-ACCTAAC-3' of promoters and specifically activates lignin biosynthetic genes during secondary wall formation mediated by SND1. {ECO:0000269|PubMed:19122102}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00249DAPTransfer from AT1G79180Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Slightly induced by UV light (PubMed:9839469). Triggered by salicylic acid and jasmonic acid (PubMed:16463103). Regulated by the SND1 close homologs NST1, NST2, VND6, and VND7 and their downstream targets MYB46 and MYB83 (PubMed:19122102, PubMed:22197883). {ECO:0000269|PubMed:16463103, ECO:0000269|PubMed:19122102, ECO:0000269|PubMed:22197883, ECO:0000269|PubMed:9839469}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ4591541e-63AJ459154.1 Gossypium hirsutum partial myb125 gene, clone pGhMYB125.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012477022.10.0PREDICTED: myb-related protein Myb4
SwissprotQ6R0A63e-80MYB63_ARATH; Transcription factor MYB63
TrEMBLA0A0D2R4W20.0A0A0D2R4W2_GOSRA; Uncharacterized protein
STRINGGorai.004G269400.10.0(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
AT1G79180.14e-76myb domain protein 63
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. 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. Noda S, et al.
    The expression of a rice secondary wall-specific cellulose synthase gene, OsCesA7, is directly regulated by a rice transcription factor, OsMYB58/63.
    Planta, 2015. 242(3): p. 589-600
    [PMID:26070439]
  4. 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]