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.011G159100.2
Common NameB456_011G159100, LOC105778367
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 bHLH
Protein Properties Length: 407aa    MW: 46048.6 Da    PI: 5.3174
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.011G159100.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH38.12.8e-12195246155
                         CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                 HLH   1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                         +r++h ++Er+RR+++N+ +  Lr+l+P +   + ++ + a+i   A+e++++L+
  Gorai.011G159100.2 195 QRMTHIAVERNRRKQMNEHLRVLRSLMPGS---YVQRGDQASIIGGAIEFVRELE 246
                         79****************************...9*****************9995 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000835.20E-13193250No hitNo description
Gene3DG3DSA:4.10.280.101.4E-13193249IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474591.83E-16194260IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088815.428194245IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.3E-9195246IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003533.4E-9200251IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd048732.79E-4332396No hitNo description
PROSITE profilePS516719.216332406IPR002912ACT domain
SuperFamilySSF550211.32E-5332394No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010377Biological Processguard cell fate commitment
GO:0045597Biological Processpositive regulation of cell differentiation
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0051782Biological Processnegative regulation of cell division
GO:0005634Cellular Componentnucleus
GO:0016597Molecular Functionamino acid binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 407 aa     Download sequence    Send to blast
MEKEENYAAN FVGPDYSLDH HQHHHQHQQP RIGESCGDNN NGMVDYMLNN PQQHQHISSS  60
SGFYTTPASF DKLSFADVMQ FADFGPKLAL NQTRIPEDET GIDPSGYFLR FPVLNDKLEA  120
ESLMVPPSGI ENVEELVEDK HGEDEARVSD NAAVQLRFFG EDDVHNRNPI APTDPAKNKR  180
KRPRTIKTSE EVESQRMTHI AVERNRRKQM NEHLRVLRSL MPGSYVQRGD QASIIGGAIE  240
FVRELEQLLQ CLESQKRRRL YGEASRQMGD TSMAAIQQQQ QQQQQPVFPP MSTLPNDQMK  300
VMEYETGLRE ETAENKSCLA DVEVKLLGFD AMIKILCRRR PGQLVKTIAA LEDLQLNILH  360
TNITTIEQTV LYSFNVKVTS ESGFSAEDIA SSVQQIFSFI HANSSM*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1195206RMTHIAVERNRR
2255259KRRRL
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Not expressed in meristemoids, but strongly expressed in guard mother cells (GMCs) and in young guard cells (at protein level) (PubMed:17088607). Expressed at the transition to terminal stomatal differentiation, just before and after the symmetric division of stomatal differentiation, being confined to late-stage GMC and to young, still differentiating guard cells (PubMed:24571519). {ECO:0000269|PubMed:17088607, ECO:0000269|PubMed:24571519}.
UniprotTISSUE SPECIFICITY: Resctricted to stomatal cell lineages (at protein level). Expressed in roots, leaves, stems, and flowers. {ECO:0000269|PubMed:12679534, ECO:0000269|PubMed:17088607}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator (PubMed:17088607, PubMed:17183265, PubMed:17183267). Together with MYB88 and MYB124, ensures that stomata contain just two guard cells (GCs) by enforcing a single symmetric precursor cell division before stomatal maturity (PubMed:24571519). Together with SPCH and MUTE, regulates the stomata formation. Required to promote differentiation and morphogenesis of stomatal guard cells and to halt proliferative divisions in their immediate precursors. Mediates the formation of stomata (PubMed:17088607, PubMed:17183265, PubMed:17183267). Prevents histone H3K27me3 marks and derepresses stem cell gene expression (PubMed:24654956). {ECO:0000269|PubMed:17088607, ECO:0000269|PubMed:17183265, ECO:0000269|PubMed:17183267, ECO:0000269|PubMed:24571519, ECO:0000269|PubMed:24654956}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Inhibited by low relative humidity (LRH) via epigenetic CG methylation, thus leading to a reduced stomatal index. {ECO:0000269|PubMed:22442411}.
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_012457507.10.0PREDICTED: transcription factor FAMA isoform X2
SwissprotQ56YJ81e-151FAMA_ARATH; Transcription factor FAMA
TrEMBLA0A0D2UTX70.0A0A0D2UTX7_GOSRA; Uncharacterized protein
STRINGGorai.011G159100.10.0(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G24140.11e-140bHLH family protein
Publications ? help Back to Top
  1. Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH
    Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature.
    Differentiation, 2010. 80(1): p. 1-8
    [PMID:20219281]
  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. Matos JL, et al.
    Irreversible fate commitment in the Arabidopsis stomatal lineage requires a FAMA and RETINOBLASTOMA-RELATED module.
    Elife, 2015.
    [PMID:25303364]
  4. Chen L, et al.
    NRPB3, the third largest subunit of RNA polymerase II, is essential for stomatal patterning and differentiation in Arabidopsis.
    Development, 2016. 143(9): p. 1600-11
    [PMID:26989174]
  5. Lee JH,Jung JH,Park CM
    Light Inhibits COP1-Mediated Degradation of ICE Transcription Factors to Induce Stomatal Development in Arabidopsis.
    Plant Cell, 2017. 29(11): p. 2817-2830
    [PMID:29070509]
  6. Han X, et al.
    Jasmonate Negatively Regulates Stomatal Development in Arabidopsis Cotyledons.
    Plant Physiol., 2018. 176(4): p. 2871-2885
    [PMID:29496884]
  7. Li X,Yang R,Chen H
    The Arabidopsis thaliana Mediator subunit MED8 regulates plant immunity to Botrytis Cinerea through interacting with the basic helix-loop-helix (bHLH) transcription factor FAMA.
    PLoS ONE, 2018. 13(3): p. e0193458
    [PMID:29513733]