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

AT4G36260.1

Common Name

F23E13.150, SRS2, STY2

Organism

Arabidopsis thaliana

Taxonomic ID

3702

Taxonomic Lineage

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

Family

SRS

Protein Properties

Length: 322aa MW: 34144.2 Da PI: 6.9791

Description

Lateral root primordium (LRP) protein-related

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT4G36260.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	222.9	6.3e-69	88	247	2	154
DUF702 2 rsgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa........aeaaskrkrelkskkqsalsstkl 91 rs t+sC+dCGnqakkdC+h+RCRtCCksrgfdC+thv+stW+p+a+rrerqqql++++s + ++ +kr+r+ + ++ss++l AT4G36260.1 88 RSITISCRDCGNQAKKDCTHMRCRTCCKSRGFDCSTHVRSTWIPVARRRERQQQLHMSTSGGGGGSgsggagggGSSIPKRHRDP--TLPGTSSSSRL 183 67899***************************************************999888777899998888889999986..888999999 PP DUF702 92 ssaeskkeletsslPeevsseavfrcvrvssvdd.geeelaYqtavsigGhvfkGiLydqGlee 154 +s+++ e+ +s+P evss+a+frcv++s+vdd g+ ++aYqt+v+igGh+fkGiLydqG+e+ AT4G36260.1 184 PSHSAGLEMGEASFPGEVSSDALFRCVKMSGVDDgGDGQYAYQTTVNIGGHLFKGILYDQGPES 247 ********************************8899**********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	1.2E-61	91	246	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	3.2E-27	93	135	IPR006510	Zinc finger, lateral root primordium type 1
Gene3D	G3DSA:2.30.27.10	5.0E-4	122	178	No hit	No description
TIGRFAMs	TIGR01624	1.1E-28	197	245	IPR006511	Lateral Root Primordium type 1, C-terminal

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009734	Biological Process	auxin-activated signaling pathway
GO:0009851	Biological Process	auxin biosynthetic process
GO:0009938	Biological Process	negative regulation of gibberellic acid mediated signaling pathway
GO:0010051	Biological Process	xylem and phloem pattern formation
GO:0010252	Biological Process	auxin homeostasis
GO:0048479	Biological Process	style development
GO:0048480	Biological Process	stigma development
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0046872	Molecular Function	metal ion binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000016	anatomy	lateral root primordium
PO:0000017	anatomy	vascular leaf primordium
PO:0000019	anatomy	gynoecium primordium
PO:0000037	anatomy	shoot apex
PO:0000293	anatomy	guard cell
PO:0005660	anatomy	hydathode
PO:0006504	anatomy	leaf trichome
PO:0009005	anatomy	root
PO:0009009	anatomy	plant embryo
PO:0009010	anatomy	seed
PO:0009029	anatomy	stamen
PO:0009031	anatomy	sepal
PO:0009046	anatomy	flower
PO:0009052	anatomy	flower pedicel
PO:0009073	anatomy	stigma
PO:0009074	anatomy	style
PO:0020030	anatomy	cotyledon
PO:0025022	anatomy	collective leaf structure
PO:0001078	developmental stage	plant embryo cotyledonary stage
PO:0001081	developmental stage	mature plant embryo stage
PO:0004507	developmental stage	plant embryo bilateral stage
PO:0007611	developmental stage	petal differentiation and expansion stage
PO:0007616	developmental stage	flowering stage

Sequence ? help Back to Top
Protein Sequence Length: 322 aa Download sequence Send to blast
MAGIFSLGGN NNNNGDEEEE NQQQQKTNWV WYRSNANTNN INPSSSQQVW QIPPEQMLMH 60 HHSHPQQQSL DLYPGHQIDV SDLATSSRSI TISCRDCGNQ AKKDCTHMRC RTCCKSRGFD 120 CSTHVRSTWI PVARRRERQQ QLHMSTSGGG GGSGSGGAGG GGSSIPKRHR DPTLPGTSSS 180 SRLPSHSAGL EMGEASFPGE VSSDALFRCV KMSGVDDGGD GQYAYQTTVN IGGHLFKGIL 240 YDQGPESSYM SGGSGGSDHQ SSSAGGGGGG HPFNPPVVTD GGGGVSSAMF VDPNSGGYYS 300 SNMTTSVFMP PGTQFYQNPP RS

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	30690618	0.0
Genevisible	253084_at	0.0
Expression Atlas	AT4G36260	-
AtGenExpress	AT4G36260	-
ATTED-II	AT4G36260	-

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
TAIR	A member of SHI gene family. Arabidopsis thaliana has ten members that encode proteins with a RING finger-like zinc finger motif. Despite being highly divergent in sequence, many of the SHI-related genes are partially redundant in function and synergistically promote gynoecium, stamen and leaf development in Arabidopsis. Encodes protein with a single zinc finger motif and a members of a small gene family of putative transcription factors in which the SHORT INTERNODES (SHI) gene is found. STY2/STY1 double mutants showed defective style, stigma as well as serrated leaves.
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	AT4G36260.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Regulation -- ATRM (Manually Curated Upstream Regulators) ? help Back to Top
Source	Upstream Regulator (A: Activate/R: Repress)
ATRM	AT4G36930 (A)

Regulation -- Hormone ? help Back to Top
Source	Hormone
AHD	gibberellin

Phenotype -- Disruption Phenotype ? help Back to Top
Source	Description
UniProt	DISRUPTION PHENOTYPE: No visible phenotype. The double mutant sty1-1 and sty2-1 has a reduction in the amount of stylar and stigmatic tissues and decreased proliferation of stylar xylem, as well as shorter siliques and rosette and cauline leaves with a higher degree of serration. Hypersensitive to 1-N-naphthylphtalamic acid (NPA), but restored by exogenous application of auxin. {ECO:0000269\|PubMed:12361963, ECO:0000269\|PubMed:16740145, ECO:0000269\|PubMed:16740146, ECO:0000269\|PubMed:18811619}.

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT4G36260

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AL022141	0.0	AL022141.1 Arabidopsis thaliana DNA chromosome 4, BAC clone F23E13 (ESSAII project).
GenBank	AL161589	0.0	AL161589.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 85.
GenBank	CP002687	0.0	CP002687.1 Arabidopsis thaliana chromosome 4 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_195349.1	0.0	Lateral root primordium (LRP) protein-like protein
Swissprot	O65517	0.0	SRS2_ARATH; Protein SHI RELATED SEQUENCE 2
TrEMBL	A0A178V2T1	0.0	A0A178V2T1_ARATH; STY2
STRING	AT4G36260.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13648	17	27
Representative plant	OGRP1313	15	49

Link Out ? help Back to Top
Phytozome	AT4G36260.1
Entrez Gene	829783
iHOP	AT4G36260
wikigenes	AT4G36260

Publications ? help Back to Top
Fridborg I,Kuusk S,Robertson M,Sundberg E The Arabidopsis protein SHI represses gibberellin responses in Arabidopsis and barley. Plant Physiol., 2001. 127(3): p. 937-48 [PMID:11706176] Kuusk S,Sohlberg JJ,Long JA,Fridborg I,Sundberg E STY1 and STY2 promote the formation of apical tissues during Arabidopsis gynoecium development. Development, 2002. 129(20): p. 4707-17 [PMID:12361963] Sohlberg JJ, et al. STY1 regulates auxin homeostasis and affects apical-basal patterning of the Arabidopsis gynoecium. Plant J., 2006. 47(1): p. 112-23 [PMID:16740145] Kuusk S,Sohlberg JJ,Magnus Eklund D,Sundberg E Functionally redundant SHI family genes regulate Arabidopsis gynoecium development in a dose-dependent manner. Plant J., 2006. 47(1): p. 99-111 [PMID:16740146] Groszmann M,Paicu T,Smyth DR Functional domains of SPATULA, a bHLH transcription factor involved in carpel and fruit development in Arabidopsis. Plant J., 2008. 55(1): p. 40-52 [PMID:18315540] Ståldal V,Sohlberg JJ,Eklund DM,Ljung K,Sundberg E Auxin can act independently of CRC, LUG, SEU, SPT and STY1 in style development but not apical-basal patterning of the Arabidopsis gynoecium. New Phytol., 2008. 180(4): p. 798-808 [PMID:18811619] Groszmann M,Bylstra Y,Lampugnani ER,Smyth DR Regulation of tissue-specific expression of SPATULA, a bHLH gene involved in carpel development, seedling germination, and lateral organ growth in Arabidopsis. J. Exp. Bot., 2010. 61(5): p. 1495-508 [PMID:20176890] Eklund DM, et al. Expression of Arabidopsis SHORT INTERNODES/STYLISH family genes in auxin biosynthesis zones of aerial organs is dependent on a GCC box-like regulatory element. Plant Physiol., 2011. 157(4): p. 2069-80 [PMID:21976484] Baylis T,Cierlik I,Sundberg E,Mattsson J SHORT INTERNODES/STYLISH genes, regulators of auxin biosynthesis, are involved in leaf vein development in Arabidopsis thaliana. New Phytol., 2013. 197(3): p. 737-50 [PMID:23293954] Jin J, et al. An Arabidopsis Transcriptional Regulatory Map Reveals Distinct Functional and Evolutionary Features of Novel Transcription Factors. Mol. Biol. Evol., 2015. 32(7): p. 1767-73 [PMID:25750178] 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]