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

GSBRNA2T00011935001

Common Name

GSBRNA2T00011935001

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

AP2

Protein Properties

Length: 228aa MW: 25015.6 Da PI: 8.271

Description

AP2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00011935001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	44.6	3.6e-14	25	75	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 s+y+GV+ +k grW+A+ + +k+++lg f+t+ eAa+a+++a+ k +g GSBRNA2T00011935001 25 SKYRGVTLHK-CGRWEARMGQF--L-GKKYVYLGLFDTEVEAARAYDKAAIKCNG 75 89******.7**5553..2.26******99********99776 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF54171	7.85E-18	25	85	IPR016177	DNA-binding domain
CDD	cd00018	3.40E-27	25	85	No hit	No description
Pfam	PF00847	9.8E-10	25	75	IPR001471	AP2/ERF domain
SMART	SM00380	4.5E-32	26	89	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	15.672	26	83	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	5.4E-17	26	83	IPR001471	AP2/ERF domain
PRINTS	PR00367	1.7E-6	27	38	IPR001471	AP2/ERF domain
PRINTS	PR00367	1.7E-6	65	85	IPR001471	AP2/ERF domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 228 aa Download sequence Send to blast
MTNLTKEEFV HVLRRQSTGF PRGSSKYRGV TLHKCGRWEA RMGQFLGKKY VYLGLFDTEV 60 EAARAYDKAA IKCNGKDAVT NFDPSIYDDE LNAESSGNSI QQDHNLDLSL GNSVNSKQKG 120 QDMRLKMNQQ ETLHPNEILG LGQTGMVNHI PNSNLQFPGS SNIGGGGGFS LFPVAENHRF 180 DGRTTTNQVL ANAAASSGFS PHHHNQIFNS TSTSHQNWLQ TNGFQPS*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.19777	1e-94	flower

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: It is detectable at low levels throughout the shoot apex and at enhanced levels in the inflorescence meristem, young floral buds and throughout the early stages of flower development and organogenesis. During floral organ differentiation it becomes spatially restricted to specific organ, tissue and cell types within the flower.
Uniprot	TISSUE SPECIFICITY: Sepals, petals, stamens, carpels, developing ovules, inflorescence stem, leaf and stem.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcriptional activator that promotes early floral meristem identity (PubMed:7919989). Is required subsequently for the transition of an inflorescence meristem into a floral meristem (PubMed:1675158). Plays a central role in the specification of floral identity, particularly for the normal development of sepals and petals in the wild-type flower, by spatially controlling the expression domains of multiple floral organ identity genes (PubMed:1675158, PubMed:23034631). Acts as A class cadastral protein by repressing the C class floral homeotic gene AGAMOUS in association with other repressors like LEUNIG and SEUSS (PubMed:1675158). Directly represses AGAMOUS by recruiting the transcriptional corepressor TOPLESS and the histone deacetylase HDA19 (PubMed:23034631). It is also required during seed development (PubMed:1675158). {ECO:0000269\|PubMed:1675158, ECO:0000269\|PubMed:23034631, ECO:0000269\|PubMed:7919989}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00011935001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Negatively regulated by the C class floral homeotic protein AGAMOUS in stamens and carpels. MicroRNA 172 (miRNA172) negatively regulates APETALA2 at the translational level and may modulate its expression pattern. Seems not to be influenced by jasmonate and Alternaria brassicicola. {ECO:0000269\|PubMed:12805630, ECO:0000269\|PubMed:12893888, ECO:0000269\|PubMed:14555699}.

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	JX041887	0.0	JX041887.1 Brassica juncea cultivar Varuna AP2 variant 1 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013617200.1	1e-168	PREDICTED: floral homeotic protein APETALA 2 isoform X1
Refseq	XP_013617207.1	1e-168	PREDICTED: floral homeotic protein APETALA 2 isoform X2
Refseq	XP_013643412.2	1e-169	floral homeotic protein APETALA 2-like isoform X1
Refseq	XP_013722962.1	1e-168	floral homeotic protein APETALA 2-like isoform X1
Refseq	XP_013722963.1	1e-168	floral homeotic protein APETALA 2-like isoform X2
Refseq	XP_022568077.1	1e-169	floral homeotic protein APETALA 2-like isoform X1
Swissprot	P47927	1e-139	AP2_ARATH; Floral homeotic protein APETALA 2
TrEMBL	A0A078JWQ4	1e-169	A0A078JWQ4_BRANA; BnaCnng71740D protein
STRING	Bo1g004960.1	1e-167	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2297	28	75

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G36920.2	1e-141	AP2 family protein

Publications ? help Back to Top
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] Thamilarasan SK,Park JI,Jung HJ,Nou IS Genome-wide analysis of the distribution of AP2/ERF transcription factors reveals duplication and CBFs genes elucidate their potential function in Brassica oleracea. BMC Genomics, 2014. 15: p. 422 [PMID:24888752] 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] Zhang GB,Yi HY,Gong JM The Arabidopsis ethylene/jasmonic acid-NRT signaling module coordinates nitrate reallocation and the trade-off between growth and environmental adaptation. Plant Cell, 2014. 26(10): p. 3984-98 [PMID:25326291] Ranocha P,Francoz E,Burlat V,Dunand C Expression of PRX36, PMEI6 and SBT1.7 is controlled by complex transcription factor regulatory networks for proper seed coat mucilage extrusion. Plant Signal Behav, 2014. 9(11): p. e977734 [PMID:25531128] Djemal R,Khoudi H Isolation and molecular characterization of a novel WIN1/SHN1 ethylene-responsive transcription factor TdSHN1 from durum wheat (Triticum turgidum. L. subsp. durum). Protoplasma, 2015. 252(6): p. 1461-73 [PMID:25687296] Kazan K Diverse roles of jasmonates and ethylene in abiotic stress tolerance. Trends Plant Sci., 2015. 20(4): p. 219-29 [PMID:25731753] Prunet N, et al. SQUINT promotes stem cell homeostasis and floral meristem termination in Arabidopsis through APETALA2 and CLAVATA signalling. J. Exp. Bot., 2015. 66(21): p. 6905-16 [PMID:26269626] Xie W, et al. Exploring potential new floral organ morphogenesis genes of Arabidopsis thaliana using systems biology approach. Front Plant Sci, 2015. 6: p. 829 [PMID:26528302] Zumajo-Cardona C,Pabón-Mora N Evolution of the APETALA2 Gene Lineage in Seed Plants. Mol. Biol. Evol., 2016. 33(7): p. 1818-32 [PMID:27030733] Zhao Y, et al. An alternative strategy for targeted gene replacement in plants using a dual-sgRNA/Cas9 design. Sci Rep, 2016. 6: p. 23890 [PMID:27033976] Gao R,Liu P,Irwanto N,Loh R,Wong SM Upregulation of LINC-AP2 is negatively correlated with AP2 gene expression with Turnip crinkle virus infection in Arabidopsis thaliana. Plant Cell Rep., 2016. 35(11): p. 2257-2267 [PMID:27473526] Huang Z, et al. APETALA2 antagonizes the transcriptional activity of AGAMOUS in regulating floral stem cells in Arabidopsis thaliana. New Phytol., 2017. 215(3): p. 1197-1209 [PMID:27604611] Dory M, et al. Kinase-Associated Phosphoisoform Assay: a novel candidate-based method to detect specific kinase-substrate phosphorylation interactions in vivo. BMC Plant Biol., 2016. 16(1): p. 204 [PMID:27655033] Wang P, et al. Expansion and Functional Divergence of AP2 Group Genes in Spermatophytes Determined by Molecular Evolution and Arabidopsis Mutant Analysis. Front Plant Sci, 2016. 7: p. 1383 [PMID:27703459] Sharma P, et al. Promoter Trapping and Deletion Analysis Show Arabidopsis thaliana APETALA2 Gene Promoter Is Bidirectional and Functions as a Pollen- and Ovule-Specific Promoter in the Reverse Orientation. Appl. Biochem. Biotechnol., 2017. 182(4): p. 1591-1604 [PMID:28130768] Kihira M, et al. Arabidopsis thaliana FLO2 is Involved in Efficiency of Photoassimilate Translocation, Which is Associated with Leaf Growth and Aging, Yield of Seeds and Seed Quality. Plant Cell Physiol., 2017. 58(3): p. 440-450 [PMID:28158741] Balanzà V, et al. Genetic control of meristem arrest and life span in Arabidopsis by a FRUITFULL-APETALA2 pathway. Nat Commun, 2018. 9(1): p. 565 [PMID:29422669] 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] Song C,Lee J,Kim T,Hong JC,Lim CO VOZ1, a transcriptional repressor of DREB2C, mediates heat stress responses in Arabidopsis. Planta, 2018. 247(6): p. 1439-1448 [PMID:29536220]