PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

GSBRNA2T00083327001

Common Name

GSBRNA2T00083327001

Organism

Brassica napus

Taxonomic ID

3708

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: 252aa MW: 28185.6 Da PI: 9.8214

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00083327001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	104.5	1.4e-32	3	77	55	128
NAM 55 ekewyfFskrdkkyatgkrknratksgyWkatgkdkevlsk.kgelvglkktLvfykgrapkgektdWvmheyrl 128 kewyfFs rd+ky+tg r+nrat++gyWk+tgkdke++++ ++elvg+kktLvfy+grap+gekt+Wvmheyrl GSBRNA2T00083327001 3 GKEWYFFSLRDRKYPTGVRTNRATNTGYWKTTGKDKEIFNStTSELVGMKKTLVFYRGRAPRGEKTSWVMHEYRL 77 689**********************************9878889*************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51005	42.732	1	99	IPR003441	NAC domain
SuperFamily	SSF101941	7.98E-38	2	99	IPR003441	NAC domain
Pfam	PF02365	1.8E-15	6	77	IPR003441	NAC domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 252 aa Download sequence Send to blast
MGGKEWYFFS LRDRKYPTGV RTNRATNTGY WKTTGKDKEI FNSTTSELVG MKKTLVFYRG 60 RAPRGEKTSW VMHEYRLHSK SSYRTSKQDE WVVCRVFKKT EAAKKYISNS SSSTSHHHQN 120 QTRASILSAN NNNPSYSSDL LQFPSHLPPH TSLNINQTLM ANAVHLAELS RVFRGSTSST 180 MDSAHQQLMS YNHMPVSGLN LNLGGALVQP PPPTVSLEDV VAVSASFNGE NGFGNVEMSQ 240 CMDLDGYWPS Y*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	8e-36	1	105	68	171	NO APICAL MERISTEM PROTEIN
1ut4_B	8e-36	1	105	68	171	NO APICAL MERISTEM PROTEIN
1ut7_A	8e-36	1	105	68	171	NO APICAL MERISTEM PROTEIN
1ut7_B	8e-36	1	105	68	171	NO APICAL MERISTEM PROTEIN
3swm_A	8e-36	1	105	71	174	NAC domain-containing protein 19
3swm_B	8e-36	1	105	71	174	NAC domain-containing protein 19
3swm_C	8e-36	1	105	71	174	NAC domain-containing protein 19
3swm_D	8e-36	1	105	71	174	NAC domain-containing protein 19
3swp_A	8e-36	1	105	71	174	NAC domain-containing protein 19
3swp_B	8e-36	1	105	71	174	NAC domain-containing protein 19
3swp_C	8e-36	1	105	71	174	NAC domain-containing protein 19
3swp_D	8e-36	1	105	71	174	NAC domain-containing protein 19
4dul_A	8e-36	1	105	68	171	NAC domain-containing protein 19
4dul_B	8e-36	1	105	68	171	NAC domain-containing protein 19
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: First expressed at the globular stage, mostly in the apical part of the embryo. During the triangular stage, confined to the boundary of emerging cotyledons. Later restricted to the center of the apical part of the embryo and to seedling apex, at the boundaries of the cotyledon margins and the boundaries between the SAM and the cotyledons. Localized in a one-cell-wide ring at the boundary between trichomes or lateral roots and epidermis. Accumulates at the boundaries between leaf primordia and the shoot meristem and between floral primordia and the inflorescence meristem. Found in the adaxial axils of secondary inflorescences and pedicels, and in axiallary buds. In flowers, expressed in a ring at the bases of sepals and petals. In carpels, confined to the boundaries between ovule primordia. In ovules, localized in a ring at the boundary between the nucellus and the chalaza. In the mature embryo sac, detected in the two polar nuclei of the central cell. {ECO:0000269\|PubMed:12837947, ECO:0000269\|PubMed:17122068}.
Uniprot	TISSUE SPECIFICITY: In a general manner, present at the boundaries between mersitems and araising primordia. {ECO:0000269\|PubMed:12837947}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator. Involved in molecular mechanisms regulating shoot apical meristem (SAM) formation during embryogenesis and organ separation. Required for axillary meristem initiation and separation of the meristem from the main stem. May act as an inhibitor of cell division. {ECO:0000269\|PubMed:12837947, ECO:0000269\|PubMed:17122068}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00083327001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By BRM, at the chromatin level, and conferring a very specific spatial expression pattern. {ECO:0000269\|PubMed:16854978}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC006403	1e-154	AC006403.4 Arabidopsis thaliana chromosome 2 clone T28I24 map mi238, complete sequence.
GenBank	CP002685	1e-154	CP002685.1 Arabidopsis thaliana chromosome 2, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009140553.1	0.0	PREDICTED: protein CUP-SHAPED COTYLEDON 3
Swissprot	Q9S851	6e-49	NAC31_ARATH; Protein CUP-SHAPED COTYLEDON 3
TrEMBL	A0A078I5P9	0.0	A0A078I5P9_BRANA; BnaA04g14380D protein
STRING	Bra032095.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6851	28	41

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G24430.2	1e-164	NAC domain containing protein 38

Publications ? help Back to Top
Chen C, et al. Transcriptome profiling reveals roles of meristem regulators and polarity genes during fruit trichome development in cucumber (Cucumis sativus L.). J. Exp. Bot., 2014. 65(17): p. 4943-58 [PMID:24962999] 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] Gonçalves B, et al. A conserved role for CUP-SHAPED COTYLEDON genes during ovule development. Plant J., 2015. 83(4): p. 732-42 [PMID:26119568] Balkunde R,Kitagawa M,Xu XM,Wang J,Jackson D SHOOT MERISTEMLESS trafficking controls axillary meristem formation, meristem size and organ boundaries in Arabidopsis. Plant J., 2017. 90(3): p. 435-446 [PMID:28161901] Espinosa-Ruiz A, et al. TOPLESS mediates brassinosteroid control of shoot boundaries and root meristem development in Arabidopsis thaliana. Development, 2017. 144(9): p. 1619-1628 [PMID:28320734] Koyama T,Sato F,Ohme-Takagi M Roles of miR319 and TCP Transcription Factors in Leaf Development. Plant Physiol., 2017. 175(2): p. 874-885 [PMID:28842549]