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

GSBRNA2T00034335001

Common Name

GSBRNA2T00034335001, LOC106382814

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

SBP

Protein Properties

Length: 309aa MW: 34416.3 Da PI: 9.2846

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00034335001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	126.2	1.3e-39	59	136	1	78
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +CqvegC++dls+ak+y++rhkvC +hsk+++v+vsgl+qrfCqqCsrfh+l efD ekrsCrrrLa hnerrrk+qa GSBRNA2T00034335001 59 RCQVEGCKMDLSNAKTYYSRHKVCGIHSKSSKVTVSGLHQRFCQQCSRFHQLCEFDLEKRSCRRRLACHNERRRKPQA 136 6**************************************************************************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	2.6E-30	54	121	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	30.573	57	134	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	2.75E-36	58	137	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	7.7E-29	60	133	IPR004333	Transcription factor, SBP-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 309 aa Download sequence Send to blast
MELLMGSGQN RTETVGSSSR ESSSLSGGLR IGQKIYFEDG SGSGKDRANK YRKTTTGARC 60 QVEGCKMDLS NAKTYYSRHK VCGIHSKSSK VTVSGLHQRF CQQCSRFHQL CEFDLEKRSC 120 RRRLACHNER RRKPQATRAT LFTSGLSRIS PSLYGSVLGD PSWDRSVFSQ GSSRFSITYP 180 EMVNNSSTDS SCALSLLSNS NTTQQQQQQL QTSTNAYLMD AERVKMAQSP PVSVHNQYSN 240 QTWEFMSGEK SNSPCVSSPA LRLNQISEPD DELQFLTSNG ATMGGFELNL QQQVLRQYSS 300 TQHFTWPL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	1e-28	60	133	11	84	squamosa promoter binding protein-like 4
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.686	1e-166	flower

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Weak increase of expression during floral induction. {ECO:0000269\|PubMed:14573523}.

Functional Description ? help Back to Top
Source	Description
UniProt	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00034335001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Negatively regulated by microRNAs miR157. {ECO:0000305\|PubMed:12202040}.

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	AC189469	0.0	AC189469.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB078G17, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013678341.1	0.0	squamosa promoter-binding-like protein 15 isoform X1
Swissprot	Q9M2Q6	1e-119	SPL15_ARATH; Squamosa promoter-binding-like protein 15
TrEMBL	A0A078J9J3	0.0	A0A078J9J3_BRANA; BnaA04g27550D protein
STRING	Bra014599.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2144	27	75

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G57920.1	1e-106	squamosa promoter binding protein-like 15

Link Out ? help Back to Top
Entrez Gene	106382814

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] Morea EG, et al. Functional and evolutionary analyses of the miR156 and miR529 families in land plants. BMC Plant Biol., 2016. 16: p. 40 [PMID:26841873] Hyun Y, et al. Multi-layered Regulation of SPL15 and Cooperation with SOC1 Integrate Endogenous Flowering Pathways at the Arabidopsis Shoot Meristem. Dev. Cell, 2016. 37(3): p. 254-66 [PMID:27134142] Xu M, et al. Developmental Functions of miR156-Regulated SQUAMOSA PROMOTER BINDING PROTEIN-LIKE (SPL) Genes in Arabidopsis thaliana. PLoS Genet., 2016. 12(8): p. e1006263 [PMID:27541584]