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

GSBRNA2T00033371001

Common Name

GSBRNA2T00033371001, LOC106400368

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

MYB

Protein Properties

Length: 325aa MW: 36744.3 Da PI: 7.8439

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00033371001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	50.5	4.8e-16	14	62	1	48
TSSS-HHHHHHHHHHHHHTTTT.-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGgg.tWktIartmgkgRtlkqcksrwqkyl 48 +g+W++eEd +l+d++ ++G+g +W + ++++g++R++k+c++rw++yl GSBRNA2T00033371001 14 KGPWSPEEDGKLKDYIDKYGTGgNWIALPQKIGLKRCGKSCRLRWLNYL 62 79*********************************************97 PP
2	Myb_DNA-binding	39	1.9e-12	69	111	2	46
SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS Myb_DNA-binding 2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 g +++eEd +++++ G++ W+ Ia+ ++ gRt++++k++w++ GSBRNA2T00033371001 69 GGFSEEEDSIILRLYISIGSR-WSIIAAQLP-GRTDNDIKNYWNT 111 569****************.*****.*********97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	13.939	9	62	IPR017930	Myb domain
SuperFamily	SSF46689	8.98E-27	11	109	IPR009057	Homeodomain-like
SMART	SM00717	3.7E-11	13	64	IPR001005	SANT/Myb domain
Pfam	PF00249	8.5E-15	14	62	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	1.0E-23	15	69	IPR009057	Homeodomain-like
CDD	cd00167	3.89E-8	16	62	No hit	No description
PROSITE profile	PS51294	21.383	63	117	IPR017930	Myb domain
SMART	SM00717	4.2E-12	67	115	IPR001005	SANT/Myb domain
Pfam	PF00249	4.0E-11	69	111	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	4.2E-23	70	117	IPR009057	Homeodomain-like
CDD	cd00167	9.66E-9	71	113	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 325 aa Download sequence Send to blast
MGRAPCCDKA NVKKGPWSPE EDGKLKDYID KYGTGGNWIA LPQKIGLKRC GKSCRLRWLN 60 YLRPNIKHGG FSEEEDSIIL RLYISIGSRW SIIAAQLPGR TDNDIKNYWN TKLKKKMLGR 120 QKQMNCQDSL TDSNENTISN NNNKSPQILS NSALERLQLH MQIQNLQSPF SSFYNNPILW 180 PKFHPLLQNT TTIPDQNAKL ASQESFHPLG VNVHQNNSIK LAEINNGVSP VYSENVEQSL 240 NPAQGFHPNC GFSQDLQLDN GSKELFLVSN DFEITNSSRW WSEEVELERK TTSSSPWGSA 300 SVLDQTTEGM VMLQDYAQMS YHSM*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1a5j_A	1e-25	14	117	7	108	B-MYB
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: In roots, expressed in endodermal cells from the late elongation zones to the differentiation zone and, to a lower extent, in endodermal cells of the meristematic zone. {ECO:0000269\|PubMed:26124109, ECO:0000269\|PubMed:26371322}.
Uniprot	TISSUE SPECIFICITY: Expressed in leaves, roots (endodermis-specific) and seedlings. {ECO:0000269\|PubMed:16461581, ECO:0000269\|PubMed:26124109, ECO:0000269\|PubMed:26371322, ECO:0000269\|PubMed:9839469}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factors that activates genes required for endodermal differentiation but represses genes involved in proliferative divisions, thus regulating the transition from proliferation to differentiation in root endodermis (PubMed:26371322). Required for Casparian strip formation by positively regulating the expression of the Casparian strip genes CASP1, PER64 and ESB1 and other endodermis-specific genes, thus triggering correct localized lignin biosynthesis in root endodermis and subsequently regulating global ion homeostasis (PubMed:26124109, PubMed:26371322). {ECO:0000269\|PubMed:26124109, ECO:0000269\|PubMed:26371322}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00033371001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Directly up-regulated by SCARECROW (SCR), as part of the differentiation program controlled by SHORT-ROOT (SHR). {ECO:0000269\|PubMed:24517883, ECO:0000269\|PubMed:26371322}.

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	AF062878	0.0	AF062878.1 Arabidopsis thaliana putative transcription factor (MYB36) mRNA, complete cds.
GenBank	AK228818	0.0	AK228818.1 Arabidopsis thaliana mRNA for Myb-related transcription factor-like protein, complete cds, clone: RAFL16-14-A17.
GenBank	AY519640	0.0	AY519640.1 Arabidopsis thaliana MYB transcription factor (At5g57620) mRNA, complete cds.
GenBank	BT030331	0.0	BT030331.1 Arabidopsis thaliana unknown protein (At5g57620) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013696192.1	0.0	transcription factor MYB36
Swissprot	Q9FKL2	0.0	MYB36_ARATH; Transcription factor MYB36
TrEMBL	A0A078GMQ9	0.0	A0A078GMQ9_BRANA; BnaC09g32700D protein
STRING	Bo9g133340.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7898	26	39

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G57620.1	0.0	myb domain protein 36

Link Out ? help Back to Top
Entrez Gene	106400368

Publications ? help Back to Top
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] Fernández-Marcos M, et al. Control of Arabidopsis lateral root primordium boundaries by MYB36. New Phytol., 2017. 213(1): p. 105-112 [PMID:27891649]