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

GSBRNA2T00080238001

Common Name

GSBRNA2T00080238001

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: 336aa MW: 36713.3 Da PI: 7.19

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00080238001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	228.4	1.3e-70	116	266	2	154
DUF702 2 rsgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstkl 91 r+g+++CqdCGnqakkdC h+RCRtCCksrgfdC+thvkstWvpaakrrerq+qlaa+ +k++++ ++++ ++ + sal++ ++ GSBRNA2T00080238001 116 RQGNMNCQDCGNQAKKDCPHMRCRTCCKSRGFDCQTHVKSTWVPAAKRRERQAQLAALPAKRSREPSSDDDENGGQ-GGGGGSALACIRV 204 7899****************************************************999888777666666555.588999***** PP DUF702 92 ssaeskkeletsslPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 ++a+s+ le ++lP+e+ss+avfrc+rvss+dd++ee+aYqt+v+igGhvfkGiLydqG+++ GSBRNA2T00080238001 205 VNASSS-GLESNHLPPEISSPAVFRCIRVSSIDDDDEEYAYQTVVEIGGHVFKGILYDQGPSD 266 99765.99999***********************************************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	1.3E-63	119	265	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	1.1E-27	121	163	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	7.6E-28	216	264	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 336 aa Download sequence Send to blast
MAGMFNLGGR DNNKQDHLHH HMDKDHNEDK SSNHLYLYKE EIYNNNNRGF EIWPSQHFQQ 60 QQQNHVAPPT NFLSFGMVPS GGSNNNDRSS NRSLYFNVVS DHERIRSSTG TFTVSRQGNM 120 NCQDCGNQAK KDCPHMRCRT CCKSRGFDCQ THVKSTWVPA AKRRERQAQL AALPAKRSRE 180 PSSDDDENGG QGGGGGSALA CIRVVNASSS GLESNHLPPE ISSPAVFRCI RVSSIDDDDE 240 EYAYQTVVEI GGHVFKGILY DQGPSDHPYS SSPAAAEACQ RHINLLASTA LASTSTTATN 300 NTKASIDPSS LYTPTAAPFS TCITTGTPFF PPPRS*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: In young plants, detected at a low level only in the root tips and lateral root primordia. In fully open flowers, primarily observed in the filaments and anthers. {ECO:0000269\|PubMed:20706774}.
Uniprot	TISSUE SPECIFICITY: Mainly expressed in the filaments of flowers, the shoot apex regions and pollen. Also present in leaves. {ECO:0000269\|PubMed:20706774}.

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). Regulates anther dehiscence and floral development. {ECO:0000269\|PubMed:16740146, ECO:0000269\|PubMed:20706774}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00080238001

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	AC189558	1e-168	AC189558.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH006P24, complete sequence.
GenBank	GU205268	1e-168	GU205268.1 Brassica rapa subsp. pekinensis short internode related sequence 7 (SRS7) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013694159.1	0.0	protein SHI RELATED SEQUENCE 7-like
Swissprot	Q9FXH7	1e-169	SRS7_ARATH; Protein SHI RELATED SEQUENCE 7
TrEMBL	A0A078I371	0.0	A0A078I371_BRANA; BnaC07g15630D protein
STRING	Bo7g062240.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2645	25	72

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G19790.2	1e-151	SHI-related sequence 7

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]