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

Ciclev10006588m

Common Name

CICLE_v10006588mg

Organism

Citrus clementina

Taxonomic ID

85681

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus

Family

M-type_MADS

Protein Properties

Length: 67aa MW: 7312.9 Da PI: 11.2034

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Ciclev10006588m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	48.7	9.8e-16	15	56	1	42
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-T CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifss 42 k+ien+ r +tfskRr gi KKA+EL +L++ ++a+++fs Ciclev10006588m 15 KKIENEGGRLITFSKRRSGIYKKASELMTLTGSKIAILLFSL 56 68*************************************995 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	8.2E-16	7	66	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	20.226	7	55	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	5.62E-18	7	57	IPR002100	Transcription factor, MADS-box
CDD	cd00266	7.07E-18	8	55	No hit	No description
PRINTS	PR00404	9.8E-14	9	29	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	4.3E-16	16	55	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	9.8E-14	29	44	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	9.8E-14	44	65	IPR002100	Transcription factor, MADS-box

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:0016021	Cellular Component	integral component of membrane
GO:0003677	Molecular Function	DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 67 aa Download sequence Send to blast
MAAKKTKGRQ KIEMKKIENE GGRLITFSKR RSGIYKKASE LMTLTGSKIA ILLFSLLGLC 60 ALLKAQ*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed during the syncytial endosperm development. {ECO:0000269\|PubMed:18334668}.
Uniprot	TISSUE SPECIFICITY: Expressed in the endosperm but not in the embryo. Detected in young siliques, roots, leaves, stems, young flowers and anthers. {ECO:0000269\|PubMed:18334668}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. Required for suppression of cellularization and promotion of nuclear proliferation during early endosperm development. The FERTILIZATION-INDEPENDENT SEED (FIS) polycomb complex is required for suppression of ALG62 expression at the end of the syncytial phase of endosperm development. {ECO:0000269\|PubMed:18334668}.

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_006492958.1	1e-30	agamous-like MADS-box protein AGL62
Swissprot	Q9FKK2	7e-17	AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBL	A0A2H5QIH3	3e-37	A0A2H5QIH3_CITUN; Uncharacterized protein
TrEMBL	V4RKB8	3e-37	V4RKB8_9ROSI; Uncharacterized protein
STRING	XP_006421338.1	6e-38	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM86	28	390

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G60440.1	6e-17	AGAMOUS-like 62

Link Out ? help Back to Top
Phytozome	Ciclev10006588m
Entrez Gene	18032028

Publications ? help Back to Top
Xu W, et al. Endosperm and Nucellus Develop Antagonistically in Arabidopsis Seeds. Plant Cell, 2016. 28(6): p. 1343-60 [PMID:27233529] Figueiredo DD,Batista RA,Roszak PJ,Köhler C Auxin production couples endosperm development to fertilization. Nat Plants, 2015. 1: p. 15184 [PMID:27251719] Figueiredo DD,Batista RA,Roszak PJ,Hennig L,Köhler C Auxin production in the endosperm drives seed coat development in Arabidopsis. Elife, 2017. [PMID:27848912] Fiume E,Coen O,Xu W,Lepiniec L,Magnani E Growth of the Arabidopsis sub-epidermal integument cell layers might require an endosperm signal. Plant Signal Behav, 2017. 12(8): p. e1339000 [PMID:28613109] Zhang S, et al. FERTILIZATION-INDEPENDENT SEED-Polycomb Repressive Complex 2 Plays a Dual Role in Regulating Type I MADS-Box Genes in Early Endosperm Development. Plant Physiol., 2018. 177(1): p. 285-299 [PMID:29523711]