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 GSBRNA2T00112438001
Common NameGSBRNA2T00112438001
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family bHLH
Protein Properties Length: 219aa    MW: 23807.1 Da    PI: 9.5962
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00112438001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH51.22.3e-16102148455
                          HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                  HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                           hn  E+rRR++iN+++  L++l+P++      K +Ka++L +A+eY+k+Lq
  GSBRNA2T00112438001 102 FHNLSEKRRRSKINEKMKALQKLIPNS-----NKTDKASMLDEAIEYLKQLQ 148
                          6*************************7.....5******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088817.11198147IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000108.4E-14102148IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474594.45E-19102167IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000836.63E-16103150No hitNo description
Gene3DG3DSA:4.10.280.101.7E-19103156IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003532.2E-16104153IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010047Biological Processfruit dehiscence
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 219 aa     Download sequence    Send to blast
MGNSDEGDRL PAPSSSDELS SILRQVLSRT PTAQPSFSPK KIVSSAEMFN RTFPLLIPTP  60
GGAVSYAACA AAETGEGKCG FENKRNGAKQ RNSLKRNIDA QFHNLSEKRR RSKINEKMKA  120
LQKLIPNSNK TDKASMLDEA IEYLKQLQLQ FQTLAAMNGL GLNPLRLPPI LPPTQTRITG  180
TSEQGLNLET LLGGSHSMAN HEPPEPTQEM CFSTTTLL*
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed constitutively in roots, leaves, stems, and flowers. Confined to the valve margins of the silique. {ECO:0000269|PubMed:11747817, ECO:0000269|PubMed:12679534}.
Functional Description ? help Back to Top
Source Description
UniProtRequired for the dehiscence of fruit, especially for the separation of the valve cells from the replum. Promotes the differentiation of a strip of labile nonlignified cells sandwiched between layers of lignified cells. {ECO:0000269|PubMed:11747817}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00112438001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankFR7272401e-102FR727240.1 Lepidium campestre mRNA for ALCATRAZ-like protein (alc gene).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013686240.11e-137transcription factor ALC isoform X2
SwissprotQ9FHA21e-104ALC_ARATH; Transcription factor ALC
TrEMBLA0A3N6QCG31e-135A0A3N6QCG3_BRACR; Uncharacterized protein
STRINGBra012133.1-P1e-130(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM139821724
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G67110.12e-87bHLH 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. Pabón-Mora N,Wong GK,Ambrose BA
    Evolution of fruit development genes in flowering plants.
    Front Plant Sci, 2014. 5: p. 300
    [PMID:25018763]
  3. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  4. Pfannebecker KC,Lange M,Rupp O,Becker A
    Seed Plant-Specific Gene Lineages Involved in Carpel Development.
    Mol. Biol. Evol., 2017. 34(4): p. 925-942
    [PMID:28087776]
  5. Zumajo-Cardona C,Ambrose BA,Pabón-Mora N
    Evolution of the SPATULA/ALCATRAZ gene lineage and expression analyses in the basal eudicot, Bocconia frutescens L. (Papaveraceae).
    Evodevo, 2017. 8: p. 5
    [PMID:28331573]
  6. He H, et al.
    CELLULASE6 and MANNANASE7 Affect Cell Differentiation and Silique Dehiscence.
    Plant Physiol., 2018. 176(3): p. 2186-2201
    [PMID:29348141]