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 XP_009139909.1
Organism
Brassica rapa
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 NAC
Protein Properties Length: 289aa    MW: 33069.5 Da    PI: 6.5139
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009139909.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM1812.9e-56201461129
             NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevlsk 95 
                     lppGfrFhPtdeel+++yLk+kv ++ +++ ++i evd++k+ePw+Lp+k+k +ekewyfF+ rd+ky+tg r+nrat++gyWkatgkdke+++ 
  XP_009139909.1  20 LPPGFRFHPTDEELITHYLKQKVFNTFFSA-TAIGEVDLNKIEPWELPRKAKIGEKEWYFFCVRDRKYPTGLRTNRATEAGYWKATGKDKEIFK- 112
                     79*************************999.88***************99999*****************************************. PP

             NAM  96 kgelvglkktLvfykgrapkgektdWvmheyrle 129
                     +++lvg+kktLvfykgrapkg++t+Wvmheyrle
  XP_009139909.1 113 GKSLVGMKKTLVFYKGRAPKGVRTNWVMHEYRLE 146
                     999*****************************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019416.41E-6317170IPR003441NAC domain
PROSITE profilePS5100559.85520170IPR003441NAC domain
PfamPF023651.2E-2921145IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 289 aa     Download sequence    Send to blast
MDYDASRIGE IVEDEEQIDL PPGFRFHPTD EELITHYLKQ KVFNTFFSAT AIGEVDLNKI  60
EPWELPRKAK IGEKEWYFFC VRDRKYPTGL RTNRATEAGY WKATGKDKEI FKGKSLVGMK  120
KTLVFYKGRA PKGVRTNWVM HEYRLEGIYS IQHLSQTAKN DWVICRVFHK RADGTKVDMS  180
HLMLLDSHVN RIEPVGLPSL MDSSQRDSFP GSSTHVTCFS DQETEDKRLI HLESKDGSGP  240
LFYPDPLFLT DNDSLMKLLL NSHETQFPGT GTDPSALAGM GESGCFWNF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ut4_A1e-571717614171NO APICAL MERISTEM PROTEIN
1ut4_B1e-571717614171NO APICAL MERISTEM PROTEIN
1ut7_A1e-571717614171NO APICAL MERISTEM PROTEIN
1ut7_B1e-571717614171NO APICAL MERISTEM PROTEIN
3swm_A1e-571717617174NAC domain-containing protein 19
3swm_B1e-571717617174NAC domain-containing protein 19
3swm_C1e-571717617174NAC domain-containing protein 19
3swm_D1e-571717617174NAC domain-containing protein 19
3swp_A1e-571717617174NAC domain-containing protein 19
3swp_B1e-571717617174NAC domain-containing protein 19
3swp_C1e-571717617174NAC domain-containing protein 19
3swp_D1e-571717617174NAC domain-containing protein 19
4dul_A1e-571717614171NAC domain-containing protein 19
4dul_B1e-571717614171NAC domain-containing protein 19
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Accumulates during leaf and flower aging (PubMed:20113437). Induced by EIN2 during leaf aging, but negatively regulated by miR164, which expression decreases gradually with aging through negative regulation by EIN2 (PubMed:19229035). In leaves, accumulates at the tips and margins and in leaves undergoing senescence. Present in floral organs of partly or fully opened flowers, but not in young flower buds. Expressed in pollen grains of mature anthers, but not in immature anthers. In petals of open flowers mostly observed in the tip region. In mature siliques, accumulates at the abscission zone, in the distal portion of the valve margins and the tip. In roots, detected in primary and lateral roots, but not in root tips. In seeds present in embryos and the micropylar endosperm (PubMed:20113437, PubMed:23340744). {ECO:0000269|PubMed:19229035, ECO:0000269|PubMed:20113437, ECO:0000269|PubMed:23340744}.
UniprotTISSUE SPECIFICITY: Mostly expressed in roots and flowers, and, to a lower extent, in shoots and leaves. Particularly expressed in old and senescing tissues. {ECO:0000269|PubMed:16359384, ECO:0000269|PubMed:20113437, ECO:0000269|PubMed:23340744}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds to DNA in promoters of target genes on a specific bipartite motif 5'-[ACG][CA]GT[AG](5-6n)[CT]AC[AG]-3' (PubMed:23340744). Promotes lateral root development (PubMed:16359384). Triggers the expression of senescence-associated genes during age-, salt- and dark-induced senescence through a regulatory network that may involve cross-talk with salt- and H(2)O(2)-dependent signaling pathways (PubMed:9351240, PubMed:15295076, PubMed:20113437, PubMed:21303842). Regulates also genes during seed germination (PubMed:20113437). Regulates positively aging-induced cell death (PubMed:19229035). Involved in age-related resistance (ARR) against Pseudomonas syringae pv. tomato and Hyaloperonospora arabidopsidis (PubMed:19694953). Antagonizes GLK1 and GLK2 transcriptional activity, shifting the balance from chloroplast maintenance towards deterioration during leaf senescence (PubMed:23459204). Promotes the expression of senescence-associated genes, including ENDO1/BFN1, SWEET15/SAG29 and SINA1/At3g13672, during senescence onset (PubMed:23340744). {ECO:0000269|PubMed:15295076, ECO:0000269|PubMed:16359384, ECO:0000269|PubMed:19229035, ECO:0000269|PubMed:19694953, ECO:0000269|PubMed:20113437, ECO:0000269|PubMed:21303842, ECO:0000269|PubMed:23340744, ECO:0000269|PubMed:23459204, ECO:0000269|PubMed:9351240}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009139909.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: High levels during senescence (e.g. age-, salt- and dark-related) (PubMed:19229035, PubMed:20113437, PubMed:21511905, PubMed:22930749). By salt stress in an ethylene- and auxin-dependent manner (PubMed:16359384, PubMed:19608714, PubMed:20113437, PubMed:20404534). Induced by H(2)O(2) (PubMed:20404534). Accumulates in response to abscisic acid (ABA), ethylene (ACC) and auxin (NAA) (PubMed:16359384, PubMed:19608714). Repressed by high auxin (IAA) levels (PubMed:21511905). Age-related resistance (ARR)-associated accumulation (PubMed:19694953). Repressed by miR164 (PubMed:19229035). {ECO:0000269|PubMed:16359384, ECO:0000269|PubMed:19229035, ECO:0000269|PubMed:19608714, ECO:0000269|PubMed:19694953, ECO:0000269|PubMed:20113437, ECO:0000269|PubMed:20404534, ECO:0000269|PubMed:21511905, ECO:0000269|PubMed:22930749}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKF7382760.0KF738276.1 Brassica napus NAC transcription factor 92 (NAC92.1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001302993.10.0NAC domain-containing protein 92-like
RefseqXP_009139909.10.0PREDICTED: NAC domain-containing protein 92
SwissprotQ9FKA01e-173NAC92_ARATH; NAC domain-containing protein 92
TrEMBLA0A078CC510.0A0A078CC51_BRANA; NAC transcription factor 92
TrEMBLA0A397ZN780.0A0A397ZN78_BRACM; Uncharacterized protein
TrEMBLM4EA510.0M4EA51_BRARP; Uncharacterized protein
STRINGBra025658.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM40028174
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G39610.11e-175NAC domain containing protein 6
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. Manacorda CA, et al.
    Salicylic acid determines differential senescence produced by two Turnip mosaic virus strains involving reactive oxygen species and early transcriptomic changes.
    Mol. Plant Microbe Interact., 2013. 26(12): p. 1486-98
    [PMID:23945002]
  3. Khan M,Rozhon W,Poppenberger B
    The role of hormones in the aging of plants - a mini-review.
    Gerontology, 2014. 60(1): p. 49-55
    [PMID:24135638]
  4. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  5. Bohner A,Kojima S,Hajirezaei M,Melzer M,von Wirén N
    Urea retranslocation from senescing Arabidopsis leaves is promoted by DUR3-mediated urea retrieval from leaf apoplast.
    Plant J., 2015. 81(3): p. 377-87
    [PMID:25440717]
  6. Sakuraba Y,Bülbül S,Piao W,Choi G,Paek NC
    Arabidopsis EARLY FLOWERING3 increases salt tolerance by suppressing salt stress response pathways.
    Plant J., 2017. 92(6): p. 1106-1120
    [PMID:29032592]
  7. Kim H, et al.
    Circadian control of ORE1 by PRR9 positively regulates leaf senescence in Arabidopsis.
    Proc. Natl. Acad. Sci. U.S.A., 2018. 115(33): p. 8448-8453
    [PMID:30065116]