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

GSBRNA2T00008351001

Common Name

GSBRNA2T00008351001

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: 328aa MW: 34395.8 Da PI: 9.3003

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00008351001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	111	1.8e-34	222	317	3	103
DUF702 3 sgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstkls 92 +gta+CqdCGnqakk+C+++RCRtCCksrgfdC+thvkstWv+aa+rrerq + ++a s+ ++++ +k++r ++q+a+s+t++s GSBRNA2T00008351001 222 AGTATCQDCGNQAKKECKQRRCRTCCKSRGFDCSTHVKSTWVSAARRRERQVMPTTAGSSP---STSSGTKKPRIA-GAQQQATSHTSTS 307 6899**********************************************99888875555...467788888876.6667777777777 PP DUF702 93 saeskkelets 103 ++ ++++++ts GSBRNA2T00008351001 308 NT-PPQSFDTS 317 66.45566554 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	4.6E-29	224	313	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	1.9E-26	226	268	IPR006510	Zinc finger, lateral root primordium type 1

Sequence ? help Back to Top
Protein Sequence Length: 328 aa Download sequence Send to blast
MLTLWYTESI SEPVSHFFGK QNREGLQASG ATRTSAGAVA TTRRHNLPTS DSGAFTDWTA 60 AATTSSRATE DLSLGFNAGP AVVHGGLASA SAAAGVPSWP PGSSVRYSLP SSAATEMGMV 120 GLRDVYLVAP AYHHHQNVGL VAGSDQINSN AAAASLGVGV IPLLTAAQAQ QQHQIVEDTD 180 INFLGNSRRW QNNDSSNNQT EYLHFKSTTV ASTSNNSGSG SAGTATCQDC GNQAKKECKQ 240 RRCRTCCKSR GFDCSTHVKS TWVSAARRRE RQVMPTTAGS SPSTSSGTKK PRIAGAQQQA 300 TSHTSTSNTP PQSFDTSSSQ KGIITFY*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed during the early stages of root primordium development and disappears prior to the emergence of lateral roots from the parent root. {ECO:0000269\|PubMed:7647564}.
Uniprot	TISSUE SPECIFICITY: Restricted to lateral root primordia. {ECO:0000269\|PubMed:7647564}.

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 influence vascular development during gynoecium development. May also have a role in the formation and/or maintenance of the shoot apical meristem (SAM). Modulates root growth. {ECO:0000269\|PubMed:16740146, ECO:0000269\|PubMed:18835563}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00008351001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Expression repressed by LDL1 via histone H3 and H4 deacetylation. {ECO:0000269\|PubMed:18835563}.

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	AC189340	0.0	AC189340.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB041J18, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009125857.1	1e-159	PREDICTED: protein LATERAL ROOT PRIMORDIUM 1-like
Swissprot	Q94CK9	3e-78	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A078JWW4	0.0	A0A078JWW4_BRANA; BnaCnng70210D protein
STRING	Bo2g010890.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5883	26	46

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G12330.4	4e-90	Lateral root primordium (LRP) protein-related

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] 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]