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

RrC3733_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

SRS

Protein Properties

Length: 341aa MW: 36049.5 Da PI: 8.0104

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC3733_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	217.3	3.5e-67	128	273	4	154
DUF702 4 gtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstklssaeskkelet 102 g+ sCqdCGnqakkdCah+RCRtCCksrg++C thvkstWvpaakrrerqqqla++++ + a+e+ +kr+re+ st+l+ + ++ l++ RrC3733_p1 128 GGPSCQDCGNQAKKDCAHMRCRTCCKSRGLECPTHVKSTWVPAAKRRERQQQLASSQQLQ--GASESVPKRPREHFPIP---PRSTSLVCTRDTSGLQV 221 6779***********************************************9986665..55889999999984443...44444555556678999 PP DUF702 103 sslPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 ++P+e+ss+a+ +cvrvssvd+ge+e+aY+tavsigGh+fkGiLydqG++e RrC3733_p1 222 GNFPPEISSSAILQCVRVSSVDEGEDEYAYKTAVSIGGHIFKGILYDQGPAE 273 9**********************************************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	1.4E-62	129	272	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	3.1E-27	131	173	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	7.4E-24	224	271	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: 341 aa Download sequence Send to blast
FFSLGNGIGV DGGGSRQNTT TTNSNNNPSP SGNESWLWCR NPNSNTNANA NANTGCGDIA 60 PSYKGTLELW QHPNNQQIIF QQQQQQQRLD LYTSAAGLGV GPSNRSLIET SGGGASALMM 120 MRSGDGGGGP SCQDCGNQAK KDCAHMRCRT CCKSRGLECP THVKSTWVPA AKRRERQQQL 180 ASSQQLQGAS ESVPKRPREH FPIPPRSTSL VCTRDTSGLQ VGNFPPEISS SAILQCVRVS 240 SVDEGEDEYA YKTAVSIGGH IFKGILYDQG PAERSSSGGG SQPLNLITAG PSASSSSANV 300 SCNNGVAGST SDHYIDPGSL NYPTPNNSFI TGTHFFSNPR S

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}.

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-170	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

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] 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]