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

GSBRNA2T00046209001

Common Name

GSBRNA2T00046209001, LOC106356513

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

SRS

Protein Properties

Length: 339aa MW: 35665.2 Da PI: 8.1658

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00046209001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	217.8	2.5e-67	126	270	4	154
DUF702 4 gtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstklss 93 g+ sCqdCGnqakkdCah+RCRtCCksrg++C thvkstWvpaakrrerqqqla++++ + + + +kr+re+ + ++s l+ GSBRNA2T00046209001 126 GGPSCQDCGNQAKKDCAHMRCRTCCKSRGLQCPTHVKSTWVPAAKRRERQQQLASSQQPQGE---SVVPKRPREHFPMPARSTS---LVC 209 6789************************************************99777755...6789999998544444333...333 PP DUF702 94 aeskkeletsslPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 +++++ l++ ++P+e+ss+a f+cvrvssvd+ge+e+aY+tavsigGhvfkGiLydqG++e GSBRNA2T00046209001 210 THNTSGLQVGNFPPEISSSATFQCVRVSSVDEGEDEYAYKTAVSIGGHVFKGILYDQGPAE 270 4445689999**********************************************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	1.2E-63	127	269	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	4.8E-27	129	171	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	4.2E-25	221	268	IPR006511	Lateral Root Primordium type 1, C-terminal

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009938	Biological Process	negative regulation of gibberellic acid mediated signaling pathway
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 339 aa Download sequence Send to blast
MAGFFSLGNG AGVDGGGSRQ DATTTNRNNN PSPSGNESWL WCRNPNSNTN ANVGCGDIAP 60 SYKGTLELWQ HPNNQQIIFQ QEQQQRLDLY TSAAGLGVGP SNRGLIETSG GGASALMMMR 120 SGGGGGGPSC QDCGNQAKKD CAHMRCRTCC KSRGLQCPTH VKSTWVPAAK RRERQQQLAS 180 SQQPQGESVV PKRPREHFPM PARSTSLVCT HNTSGLQVGN FPPEISSSAT FQCVRVSSVD 240 EGEDEYAYKT AVSIGGHVFK GILYDQGPAE RSSSGGGSQP LNLITAGPSA SSSSANVSCN 300 NGVVGSTSDH YIDPASLNYP TPNNSFITGT HFFSNPRS*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: In germinating seeds, first detected at about 48 h after imbibition. In young seedlings grown in continuous light, present in the root/shoot transition zone, in the apex, and in the apical region of the cotyledons. Later observed in lateral root primordia and in emerging lateral roots, particularly in the root tips, as well as in the shoot apex and in the new leaves, especially in the apical and lateral hydathodes. In adult plants, accumulates in lateral root tips, lateral root primordia, and axillary shoot primordia. In flowers, expressed in the style and stigmatic surface of the pistil and in the receptacle (base) of the flower throughout the development of the pistil until anthesis and later in the silique. Fades out after fertilization. {ECO:0000269\|PubMed:11706176, ECO:0000269\|PubMed:16740146}.
Uniprot	TISSUE SPECIFICITY: Expressed in young organs such as shoot apices and root tips. Present in roots, stems, flowers, leaves, hydathodes and siliques. {ECO:0000269\|PubMed:10368174, ECO:0000269\|PubMed:11706176}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that binds DNA on 5'-ACTCTAC-3' and promotes auxin homeostasis-regulating gene expression (e.g. YUC genes), as well as genes affecting stamen development, cell expansion and timing of flowering. Synergistically with other SHI-related proteins, regulates gynoecium, stamen and leaf development in a dose-dependent manner, controlling apical-basal patterning. Promotes style and stigma formation, and influences vascular development during gynoecium development. May also have a role in the formation and/or maintenance of the shoot apical meristem (SAM). Suppressor of the gibberellin (GA) signal transduction. {ECO:0000269\|PubMed:10368174, ECO:0000269\|PubMed:11706176, ECO:0000269\|PubMed:16740146}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00046209001

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013651712.1	0.0	protein SHORT INTERNODES
Swissprot	Q9XGX0	1e-173	SHI_ARATH; Protein SHORT INTERNODES
TrEMBL	A0A078GWD7	0.0	A0A078GWD7_BRANA; BnaC07g16800D protein
TrEMBL	A0A3P6E0H4	0.0	A0A3P6E0H4_BRAOL; Uncharacterized protein
STRING	Bo7g065040.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3419	28	64

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G66350.1	1e-135	Lateral root primordium (LRP) protein-related

Link Out ? help Back to Top
Entrez Gene	106356513

Publications ? help Back to Top
Islam MA, et al. Overexpression of the AtSHI gene in poinsettia, Euphorbia pulcherrima, results in compact plants. PLoS ONE, 2013. 8(1): p. e53377 [PMID:23308204] 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] Pfannebecker KC,Lange M,Rupp O,Becker A An Evolutionary Framework for Carpel Developmental Control Genes. Mol. Biol. Evol., 2017. 34(2): p. 330-348 [PMID:28049761] Estornell LH,Landberg K,Cierlik I,Sundberg E SHI/STY Genes Affect Pre- and Post-meiotic Anther Processes in Auxin Sensing Domains in Arabidopsis. Front Plant Sci, 2018. 9: p. 150 [PMID:29491878]