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

GSBRNA2T00038707001

Common Name

GSBRNA2T00038707001

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

GRAS

Protein Properties

Length: 154aa MW: 17475.9 Da PI: 6.5107

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00038707001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	129.6	3.5e-40	37	153	257	374
GRAS 257 flealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvks 346 + e+l+yy+a+f+s+++ lpr+++eri+vE+++l+ + vn++acegaer++rhe l+kW++r+++aGF+p+pls+ + +++++ll+ ++ GSBRNA2T00038707001 37 LHETLSYYTAMFESIDVILPRNHKERINVEQHCLASNNVNIIACEGAERIKRHELLGKWKSRFSMAGFEPYPLSSVVSATIRALLKDYN- 125 6799***********************************************************************************. PP GRAS 347 dgyrveeesgslvlgWkdrpLvsvSaWr 374 +gy +ee++g+l+lgW dr Lvs +aW+ GSBRNA2T00038707001 126 NGYGIEERDGALYLGWVDRILVSSCAWK 153 9************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50985	19.289	1	134	IPR005202	Transcription factor GRAS
Pfam	PF03514	1.2E-37	37	153	IPR005202	Transcription factor GRAS

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated

Sequence ? help Back to Top
Protein Sequence Length: 154 aa Download sequence Send to blast
MLEGLVARLA TTGSSIYKSL QSREPESYDF LSYDYLLHET LSYYTAMFES IDVILPRNHK 60 ERINVEQHCL ASNNVNIIAC EGAERIKRHE LLGKWKSRFS MAGFEPYPLS SVVSATIRAL 120 LKDYNNGYGI EERDGALYLG WVDRILVSSC AWK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5hyz_A	6e-13	41	153	259	375	GRAS family transcription factor containing protein, expressed
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in seedlings, roots, cotyledons, leaves and flowers. {ECO:0000269\|PubMed:18500650}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in plant development. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00038707001

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	AC006955	1e-113	AC006955.6 Arabidopsis thaliana chromosome 2 clone F28I8 map RNS1, complete sequence.
GenBank	AC007211	1e-113	AC007211.6 Arabidopsis thaliana chromosome 2 BAC F1O13 genomic sequence, complete sequence.
GenBank	AF210732	1e-113	AF210732.1 Arabidopsis thaliana scarecrow-like 21 (SCL21) mRNA, complete cds.
GenBank	AK175210	1e-113	AK175210.1 Arabidopsis thaliana mRNA for putative SCARECROW gene regulator, complete cds, clone: RAFL21-63-H23.
GenBank	AK176099	1e-113	AK176099.1 Arabidopsis thaliana mRNA for putative SCARECROW gene regulator, partial cds, clone: RAFL22-88-J06.
GenBank	BT026455	1e-113	BT026455.1 Arabidopsis thaliana At2g04890 mRNA, complete cds.
GenBank	CP002685	1e-113	CP002685.1 Arabidopsis thaliana chromosome 2, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013703110.1	8e-73	scarecrow-like protein 21 isoform X1
Refseq	XP_013703111.1	4e-73	scarecrow-like protein 21 isoform X2
Swissprot	Q9S7H5	2e-72	SCL21_ARATH; Scarecrow-like protein 21
TrEMBL	A0A078GR10	1e-109	A0A078GR10_BRANA; BnaA07g04510D protein
STRING	Bra015156.1-P	8e-73	(Brassica rapa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G04890.1	8e-75	SCARECROW-like 21

Publications ? help Back to Top
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] 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]