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

Tp6g31310

Organism

Thellungiella parvula

Taxonomic ID

98039

Taxonomic Lineage

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

Family

SRS

Protein Properties

Length: 405aa MW: 42048.9 Da PI: 8.2271

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp6g31310	genome	thellungiella	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	211	3e-65	199	359	3	154
DUF702 3 sgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasaaeaaskrkrelkskkqsalsstklssaeskkelet 102 sgta+CqdCGnqakk+C+++RCRtCCksrgfdC+thvkstWv+aa+rrerq + + + ++ ++++ +k++r ++q+++s+t++s++ ++++++t Tp6g31310 199 SGTATCQDCGNQAKKECKQRRCRTCCKSRGFDCSTHVKSTWVSAARRRERQVMSTGNPTAGSSLSTSSGTKKPRIV-GSQQQTTSHTSTSNT-PPQSFDT 296 7899********************************************99999988888888899999999987.566666777776666.6778888 PP DUF702 103 ss...........lPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 ss +P +v+++avf+cvrv++v+dg++e+aYq++v+igGhvfkG+LydqGle Tp6g31310 297 SSsrqdgggsreaWPGQVRAAAVFKCVRVTAVEDGDDEYAYQAVVKIGGHVFKGFLYDQGLEP 359 88899*****************************************************985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	7.2E-59	201	358	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	2.5E-26	203	245	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	2.3E-30	309	357	IPR006511	Lateral Root Primordium type 1, C-terminal

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009733	Biological Process	response to auxin
GO:0048364	Biological Process	root development
GO:0042803	Molecular Function	protein homodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 405 aa Download sequence Send to blast
MDVKDLTGAA AVATTRRHNL PTSDSGAFTD WAATTTTTSS RATEDLSLGF NASPAVAHGD 60 LGSASAAAGV SSWPPGSSVR YGLPSSAAAT EMGMVGLRDV YLVAPAYHHQ NAGIVSGSDQ 120 INSNAAAAAL GVGVIPLLTT APSQQQNVEE TDINFFGNSR RWHNNNSNNN QTQYLHFKST 180 HQTTVASSSN NSGSGSAASG TATCQDCGNQ AKKECKQRRC RTCCKSRGFD CSTHVKSTWV 240 SAARRRERQV MSTGNPTAGS SLSTSSGTKK PRIVGSQQQT TSHTSTSNTP PQSFDTSSSR 300 QDGGGSREAW PGQVRAAAVF KCVRVTAVED GDDEYAYQAV VKIGGHVFKG FLYDQGLEPK 360 EGFPNMSDLH LGGGANNHNG VSASPPILDA PNVYGGGGSG GGFFG

Sequence ? help Back to Top

Protein Sequence Length: 405 aa Download sequence Send to blast

MDVKDLTGAA AVATTRRHNL PTSDSGAFTD WAATTTTTSS RATEDLSLGF NASPAVAHGD  60
LGSASAAAGV SSWPPGSSVR YGLPSSAAAT EMGMVGLRDV YLVAPAYHHQ NAGIVSGSDQ  120
INSNAAAAAL GVGVIPLLTT APSQQQNVEE TDINFFGNSR RWHNNNSNNN QTQYLHFKST  180
HQTTVASSSN NSGSGSAASG TATCQDCGNQ AKKECKQRRC RTCCKSRGFD CSTHVKSTWV  240
SAARRRERQV MSTGNPTAGS SLSTSSGTKK PRIVGSQQQT TSHTSTSNTP PQSFDTSSSR  300
QDGGGSREAW PGQVRAAAVF KCVRVTAVED GDDEYAYQAV VKIGGHVFKG FLYDQGLEPK  360
EGFPNMSDLH LGGGANNHNG VSASPPILDA PNVYGGGGSG GGFFG

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	Tp6g31310

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	GU205266	0.0	GU205266.1 Brassica rapa subsp. pekinensis lateral root primordium 1 (LRP1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001190295.1	0.0	Lateral root primordium (LRP) protein-like protein
Refseq	XP_013727118.1	0.0	protein LATERAL ROOT PRIMORDIUM 1-like
Swissprot	Q94CK9	1e-163	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A397XVM5	0.0	A0A397XVM5_BRACM; Uncharacterized protein
STRING	AT5G12330.4	0.0	(Arabidopsis thaliana)

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	1e-166	Lateral root primordium (LRP) protein-related

Publications ? help Back to Top
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]