PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Gorai.007G002200.1
Common NameB456_007G002200
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: 253aa    MW: 29596.1 Da    PI: 9.9061
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.007G002200.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding574.3e-181863147
                        TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
     Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47
                        rg W + Ed++l+d+v+++G+++W++Ia++++ gR++k+c++rw++ 
  Gorai.007G002200.1 18 RGHWRPAEDDKLLDLVQRYGPHNWNAIAEKLQ-GRSGKSCRLRWFNQ 63
                        899*****************************.***********996 PP
2Myb_DNA-binding55.99.9e-1870113146
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
     Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                         r ++T+eE+e+l+  ++ +G++ W+ Iar ++ gRt++ +k++w+ 
  Gorai.007G002200.1  70 RSPFTEEEEERLLASHRIHGNR-WSVIARLFP-GRTDNAVKNHWHV 113
                         789*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129416.0691364IPR017930Myb domain
SMARTSM007179.5E-151766IPR001005SANT/Myb domain
PfamPF002499.4E-181863IPR001005SANT/Myb domain
SuperFamilySSF466891.46E-2918111IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.605.1E-271971IPR009057Homeodomain-like
CDDcd001679.80E-142162No hitNo description
PROSITE profilePS5129425.11765119IPR017930Myb domain
SMARTSM007172.4E-1569117IPR001005SANT/Myb domain
PfamPF002492.0E-1470112IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.603.7E-2172118IPR009057Homeodomain-like
CDDcd001672.53E-1272112No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009737Biological Processresponse to abscisic acid
GO:2000652Biological Processregulation of secondary cell wall biogenesis
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 253 aa     Download sequence    Send to blast
MGQAYLRFFI ANQQMCSRGH WRPAEDDKLL DLVQRYGPHN WNAIAEKLQG RSGKSCRLRW  60
FNQLDPRINR SPFTEEEEER LLASHRIHGN RWSVIARLFP GRTDNAVKNH WHVIMARRCR  120
RQRSSSKTLP PSTSTSTSTS HQHHITSTTL FPHNNYMHAF PPYSYFKHFY AHNPNPSLTT  180
TTQAIADTTQ PTEFYDFLQV NTDSNESEVT DNTCKRDGEE VDQEHQSRPA VPFFDFLSVP  240
RKLYTIHKRR LR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1mse_C1e-33151191105C-Myb DNA-Binding Domain
1msf_C1e-33151191105C-Myb DNA-Binding Domain
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in stamen (PubMed:19325888). Present in roots and siliques, and, at low levels, in leaves and flowers (PubMed:21399993). Expressed in stems, especially in fibers and, at lower levels, in xylems (PubMed:18952777, PubMed:21399993). {ECO:0000269|PubMed:18952777, ECO:0000269|PubMed:19325888, ECO:0000269|PubMed:21399993}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that confers sensitivity to abscisic acid (ABA) and salt, but tolerance to drought (PubMed:21399993). Regulates secondary cell wall (SCW) biosynthesis, especially in interfascicular and xylary fibers (PubMed:18952777, PubMed:23781226). {ECO:0000269|PubMed:18952777, ECO:0000269|PubMed:21399993, ECO:0000269|PubMed:23781226}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00145DAPTransfer from AT1G17950Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By abscisic acid (PubMed:16463103, PubMed:21399993). Accumulates in response to salt (PubMed:21399993). Triggered by MYB46 and MYB83 in the regulation of secondary cell wall biosynthesis (PubMed:19674407, PubMed:22197883). {ECO:0000269|PubMed:16463103, ECO:0000269|PubMed:19674407, ECO:0000269|PubMed:21399993, ECO:0000269|PubMed:22197883}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJX6149471e-69JX614947.1 Gossypium hirsutum clone NBRI_GE58686 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012488370.11e-180PREDICTED: transcriptional activator Myb-like isoform X1
SwissprotQ6R0C46e-86MYB52_ARATH; Transcription factor MYB52
TrEMBLA0A0D2QIV70.0A0A0D2QIV7_GOSRA; Uncharacterized protein
STRINGGorai.007G002200.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM28182769
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G17950.15e-79myb domain protein 52
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. Cassan-Wang H, et al.
    Identification of novel transcription factors regulating secondary cell wall formation in Arabidopsis.
    Front Plant Sci, 2013. 4: p. 189
    [PMID:23781226]
  4. Shi D, et al.
    MYB52 Negatively Regulates Pectin Demethylesterification in Seed Coat Mucilage.
    Plant Physiol., 2018. 176(4): p. 2737-2749
    [PMID:29440562]