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

GSBRNA2T00121472001

Common Name

GSBRNA2T00121472001

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: 314aa MW: 33741.5 Da PI: 6.224

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00121472001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	217.9	2.3e-67	90	243	2	154
DUF702 2 rsgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa..aeaaskrkrelkskkqsalsst 89 rs t+sC+dCGnqakkdC+h+RCRtCCksrgfdC+thv+stW+p+a+rrerqqq ++++s + + ++ +kr+r++ ++ +ss GSBRNA2T00121472001 90 RSITISCRDCGNQAKKDCTHMRCRTCCKSRGFDCSTHVRSTWIPVARRRERQQQVQMSTSGGSGNGggGSSIAKRHRDT---TRPGTSSF 176 67899**************************************************9998887776677778888875...55556666 PP DUF702 90 klssaeskkeletsslPeevsseavfrcvrvssvddgeee..laYqtavsigGhvfkGiLydqGlee 154 + +s ++ e+ +s+P+evss+a+f+cv++s+vddge++ +aYqt+v+igGh+fkGiLydqG+e+ GSBRNA2T00121472001 177 RSPSDSAGLEMGEASFPPEVSSDALFQCVKMSGVDDGEDDgqYAYQTTVNIGGHLFKGILYDQGPES 243 778888999***********************665334*********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	2.4E-61	93	242	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	3.1E-27	95	137	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	4.8E-27	192	241	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 314 aa Download sequence Send to blast
MSGMFSLGGN NNNNNNGYEE EENQQQQNTN WAWYRSNTNT NNITPGSSQW QIPPEQQLLM 60 HHHQSQPQQQ SLDLYPGHQI DVSDVATSSR SITISCRDCG NQAKKDCTHM RCRTCCKSRG 120 FDCSTHVRST WIPVARRRER QQQVQMSTSG GSGNGGGGSS IAKRHRDTTR PGTSSFRSPS 180 DSAGLEMGEA SFPPEVSSDA LFQCVKMSGV DDGEDDGQYA YQTTVNIGGH LFKGILYDQG 240 PESSYVSGGS GGSDHQSSSA GGGNPINTPA MADGGGGSST MFVDPNSSGY YSSNMATMFV 300 PPGTQFYQNP PRS*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in the apical parts of the developing gynoecium. In carpels, first observed at late development stage in the most apical parts of the open-ended gynoecium. Accumulates in differentiating style and stigmatic tissues. Not expressed in the stigma after fertilization but remains in the style until full silique maturation. Also detected in anthers. In seedlings, present in the shoot apex and in cotyledons, leaf primordia, stipules, hydathodes and in primordia of lateral roots. Detected in developing trichomes and in leaf and pedicel attachment sites. {ECO:0000269\|PubMed:12361963}.
Uniprot	TISSUE SPECIFICITY: Expressed in seedlings, roots, cauline leaves, flowers and siliques. {ECO:0000269\|PubMed:12361963}.

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). {ECO:0000269\|PubMed:12361963, ECO:0000269\|PubMed:16740145, ECO:0000269\|PubMed:16740146, ECO:0000269\|PubMed:18811619}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00121472001

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	GU205264	0.0	GU205264.1 Brassica rapa subsp. pekinensis stylish 2a (STY2a) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009145510.1	0.0	PREDICTED: protein SHI RELATED SEQUENCE 2
Swissprot	O65517	1e-142	SRS2_ARATH; Protein SHI RELATED SEQUENCE 2
TrEMBL	A0A3P5ZHB2	0.0	A0A3P5ZHB2_BRACM; Uncharacterized protein
TrEMBL	D2KC73	0.0	D2KC73_BRARP; Stylish 2a
STRING	Bra011675.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13648	17	27

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G36260.1	1e-115	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]