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

AT1G27370.4

Common Name

F17L21.15, SPL10

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

SBP

Protein Properties

Length: 396aa MW: 44159.1 Da PI: 7.8702

Description

squamosa promoter binding protein-like 10

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT1G27370.4	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	128.2	3.2e-40	175	251	1	77
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 +Cq++gCe dls+ k+yhr+h+vCe+hsk+p+v+vsgle+rfCqqCsrfh++sefDe+krsCr+rL++hn+rrrk+q AT1G27370.4 175 RCQIDGCELDLSSSKDYHRKHRVCETHSKCPKVVVSGLERRFCQQCSRFHAVSEFDEKKRSCRKRLSHHNARRRKPQ 251 6**************************************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	6.8E-33	168	237	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	32.402	173	250	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	1.7E-37	174	251	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	9.5E-31	176	249	IPR004333	Transcription factor, SBP-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010358	Biological Process	leaf shaping
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0048510	Biological Process	regulation of timing of transition from vegetative to reproductive phase
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:0000013	anatomy	cauline leaf
PO:0000014	anatomy	rosette leaf
PO:0000037	anatomy	shoot apex
PO:0000230	anatomy	inflorescence meristem
PO:0000293	anatomy	guard cell
PO:0008019	anatomy	leaf lamina base
PO:0009005	anatomy	root
PO:0009006	anatomy	shoot system
PO:0009009	anatomy	plant embryo
PO:0009010	anatomy	seed
PO:0009025	anatomy	vascular leaf
PO:0009029	anatomy	stamen
PO:0009030	anatomy	carpel
PO:0009031	anatomy	sepal
PO:0009032	anatomy	petal
PO:0009046	anatomy	flower
PO:0009047	anatomy	stem
PO:0009049	anatomy	inflorescence
PO:0009052	anatomy	flower pedicel
PO:0020030	anatomy	cotyledon
PO:0020038	anatomy	petiole
PO:0020100	anatomy	hypocotyl
PO:0020137	anatomy	leaf apex
PO:0025022	anatomy	collective leaf structure
PO:0025281	anatomy	pollen
PO:0001054	developmental stage	vascular leaf senescent stage
PO:0001078	developmental stage	plant embryo cotyledonary stage
PO:0001081	developmental stage	mature plant embryo stage
PO:0001185	developmental stage	plant embryo globular stage
PO:0004507	developmental stage	plant embryo bilateral stage
PO:0007064	developmental stage	LP.12 twelve leaves visible stage
PO:0007095	developmental stage	LP.08 eight leaves visible stage
PO:0007098	developmental stage	LP.02 two leaves visible stage
PO:0007103	developmental stage	LP.10 ten leaves visible stage
PO:0007115	developmental stage	LP.04 four leaves visible stage
PO:0007123	developmental stage	LP.06 six leaves visible stage
PO:0007611	developmental stage	petal differentiation and expansion stage
PO:0007616	developmental stage	flowering stage

Sequence ? help Back to Top
Protein Sequence Length: 396 aa Download sequence Send to blast
MDCNMVSSFP WDWENLIMSN QSKTENEKKQ QSTEWEFEKG EGIESIVPDF LGFEKVSSGS 60 ATSFWHTAVS KSSQSTSINS SSPEDKRCNL ASQSSPGDSS SNIDFLQVKP STALEVPIAS 120 AESDLCLKLG KRTYSEEFWG RNNNDLSAVS MNLLTPSVVA RKKTKSCGQS MQVPRCQIDG 180 CELDLSSSKD YHRKHRVCET HSKCPKVVVS GLERRFCQQC SRFHAVSEFD EKKRSCRKRL 240 SHHNARRRKP QGVFPLNSER VFDRRQHTSM LWNGLSLNTR SEEKYTWGTT YETKPTQMES 300 GFTLSFQRGN GSEDQLFTGS TLSFSAFQTS GGFSAGKSNI QLPDKGVGEC SGGLHESHDF 360 YSALSLLSTT SDSQGIKHTP VAEPPPIFGT FPSHFI

Sequence ? help Back to Top

Protein Sequence Length: 396 aa Download sequence Send to blast

MDCNMVSSFP WDWENLIMSN QSKTENEKKQ QSTEWEFEKG EGIESIVPDF LGFEKVSSGS  60
ATSFWHTAVS KSSQSTSINS SSPEDKRCNL ASQSSPGDSS SNIDFLQVKP STALEVPIAS  120
AESDLCLKLG KRTYSEEFWG RNNNDLSAVS MNLLTPSVVA RKKTKSCGQS MQVPRCQIDG  180
CELDLSSSKD YHRKHRVCET HSKCPKVVVS GLERRFCQQC SRFHAVSEFD EKKRSCRKRL  240
SHHNARRRKP QGVFPLNSER VFDRRQHTSM LWNGLSLNTR SEEKYTWGTT YETKPTQMES  300
GFTLSFQRGN GSEDQLFTGS TLSFSAFQTS GGFSAGKSNI QLPDKGVGEC SGGLHESHDF  360
YSALSLLSTT SDSQGIKHTP VAEPPPIFGT FPSHFI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	1e-26	176	249	11	84	squamosa promoter binding protein-like 4
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	231	248	KKRSCRKRLSHHNARRRK

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.21970	0.0	flower

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	30689874	0.0
Genevisible	264489_at	0.0
Expression Atlas	AT1G27370	-
AtGenExpress	AT1G27370	-
ATTED-II	AT1G27370	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed constitutively during plant development, weak increase during flowering. {ECO:0000269\|PubMed:10524240, ECO:0000269\|PubMed:14573523}.

Functional Description ? help Back to Top
Source	Description
TAIR	In conjunction with SPL11 and SPL2, SPL10 redundantly controls proper development of lateral organs in association with shoot maturation in the reproductive phase. SPL10 also controls lamina shape during vegetative development.
UniProt	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000250}.

Function -- GeneRIF ? help Back to Top
SPL10, SPL11 and SPL2 regulate morphological traits of cauline leaves and flowers, and control shoot maturation not only in the vegetative phase but also in the reproductive phase. [PMID: 19880401]

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT1G27370.4

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Negatively regulated by microRNAs miR156 and miR157. {ECO:0000305\|PubMed:12202040}.

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

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT1G27370

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AJ011637	0.0	AJ011637.1 Arabidopsis thaliana (ecotype Columbia) mRNA for squamosa promoter binding protein-like 10.
GenBank	AY142028	0.0	AY142028.1 Arabidopsis thaliana At1g27370/F17L21_16 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001031096.2	0.0	squamosa promoter binding protein-like 10
Refseq	NP_001077605.1	0.0	squamosa promoter binding protein-like 10
Refseq	NP_001319090.1	0.0	squamosa promoter binding protein-like 10
Refseq	NP_001323271.1	0.0	squamosa promoter binding protein-like 10
Refseq	NP_174057.2	0.0	squamosa promoter binding protein-like 10
Refseq	NP_973921.1	0.0	squamosa promoter binding protein-like 10
Swissprot	Q8S9L0	0.0	SPL10_ARATH; Squamosa promoter-binding-like protein 10
TrEMBL	A0A178WJ37	0.0	A0A178WJ37_ARATH; SPL10
STRING	AT1G27370.1	0.0	(Arabidopsis thaliana)

Link Out ? help Back to Top
Phytozome	AT1G27370.4
Entrez Gene	839626
iHOP	AT1G27370
wikigenes	AT1G27370

Publications ? help Back to Top
Cardon G, et al. Molecular characterisation of the Arabidopsis SBP-box genes. Gene, 1999. 237(1): p. 91-104 [PMID:10524240] Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Rhoades MW, et al. Prediction of plant microRNA targets. Cell, 2002. 110(4): p. 513-20 [PMID:12202040] Schmid M, et al. Dissection of floral induction pathways using global expression analysis. Development, 2003. 130(24): p. 6001-12 [PMID:14573523] Yamada K, et al. Empirical analysis of transcriptional activity in the Arabidopsis genome. Science, 2003. 302(5646): p. 842-6 [PMID:14593172] Vazquez F,Gasciolli V,Cr The nuclear dsRNA binding protein HYL1 is required for microRNA accumulation and plant development, but not posttranscriptional transgene silencing. Curr. Biol., 2004. 14(4): p. 346-51 [PMID:14972688] Vaucheret H,Vazquez F,Cr The action of ARGONAUTE1 in the miRNA pathway and its regulation by the miRNA pathway are crucial for plant development. Genes Dev., 2004. 18(10): p. 1187-97 [PMID:15131082] Souret FF,Kastenmayer JP,Green PJ AtXRN4 degrades mRNA in Arabidopsis and its substrates include selected miRNA targets. Mol. Cell, 2004. 15(2): p. 173-83 [PMID:15260969] Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Cao D,Cheng H,Wu W,Soo HM,Peng J Gibberellin mobilizes distinct DELLA-dependent transcriptomes to regulate seed germination and floral development in Arabidopsis. Plant Physiol., 2006. 142(2): p. 509-25 [PMID:16920880] Wang JW,Schwab R,Czech B,Mica E,Weigel D Dual effects of miR156-targeted SPL genes and CYP78A5/KLUH on plastochron length and organ size in Arabidopsis thaliana. Plant Cell, 2008. 20(5): p. 1231-43 [PMID:18492871] Wu G, et al. The sequential action of miR156 and miR172 regulates developmental timing in Arabidopsis. Cell, 2009. 138(4): p. 750-9 [PMID:19703400] Shikata M,Koyama T,Mitsuda N,Ohme-Takagi M Arabidopsis SBP-box genes SPL10, SPL11 and SPL2 control morphological change in association with shoot maturation in the reproductive phase. Plant Cell Physiol., 2009. 50(12): p. 2133-45 [PMID:19880401] Nodine MD,Bartel DP MicroRNAs prevent precocious gene expression and enable pattern formation during plant embryogenesis. Genes Dev., 2010. 24(23): p. 2678-92 [PMID:21123653] 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] Yu N,Niu QW,Ng KH,Chua NH The role of miR156/SPLs modules in Arabidopsis lateral root development. Plant J., 2015. 83(4): p. 673-85 [PMID:26096676] Xu M, et al. Developmental Functions of miR156-Regulated SQUAMOSA PROMOTER BINDING PROTEIN-LIKE (SPL) Genes in Arabidopsis thaliana. PLoS Genet., 2016. 12(8): p. e1006263 [PMID:27541584] Gao R,Wang Y,Gruber MY,Hannoufa A miR156/SPL10 Modulates Lateral Root Development, Branching and Leaf Morphology in Arabidopsis by Silencing AGAMOUS-LIKE 79. Front Plant Sci, 2017. 8: p. 2226 [PMID:29354153] Dotto M,Gómez MS,Soto MS,Casati P UV-B radiation delays flowering time through changes in the PRC2 complex activity and miR156 levels in Arabidopsis thaliana. Plant Cell Environ., 2018. 41(6): p. 1394-1406 [PMID:29447428]