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

Carubv10028378m

Common Name

CARUB_v10028378mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

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

Family

M-type_MADS

Protein Properties

Length: 259aa MW: 30577.7 Da PI: 9.3023

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10028378m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	61.9	7.4e-20	9	44	16	51
HHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 16 RrngilKKAeELSvLCdaevaviifsstgklyeyss 51 +i+KKA+ELSvLC++ev+vi+++++g+l+++++ Carubv10028378m 9 SSRTIFKKAYELSVLCAIEVCVIYYGPDGQLKTWPK 44 5679******************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	10.204	6	46	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	3.01E-15	9	78	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	9.8E-12	11	42	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:0003677	Molecular Function	DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 259 aa Download sequence Send to blast
MFHPQFHNSS RTIFKKAYEL SVLCAIEVCV IYYGPDGQLK TWPKEKEKVK DIALRYKEAR 60 KRKKSLNLHE FLEKEKDKDK DKVTTNLKKK NVKYPHWYPK FDHYSPQQLS QLIQSLERTL 120 SKLQERLRVV EAKKQRNNTN LVHPNQHLNP ENFSLYMYNH DDAILSQPPF NASHANLLSN 180 YQNHLMKQEL YDFGQNMCMD NITNTNFHHP CYSNTQGYAP LLSQKELNGF DQNMVLMSNI 240 TNNNGLSNTV PHEFYPNEL

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	59	63	RKRKK

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that may function in the maintenance of the proper function of the central cell in pollen tube attraction. {ECO:0000305\|PubMed:26462908}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10028378m

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	AB011479	2e-74	AB011479.1 Arabidopsis thaliana genomic DNA, chromosome 5, P1 clone:MNA5.
GenBank	AY141224	2e-74	AY141224.1 Arabidopsis thaliana MADS-box protein AGL78 mRNA, complete cds.
GenBank	CP002688	2e-74	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023633447.1	1e-172	LOW QUALITY PROTEIN: agamous-like MADS-box protein AGL75
Swissprot	Q9FLL0	4e-63	AGL75_ARATH; Agamous-like MADS-box protein AGL75
TrEMBL	R0GEA3	0.0	R0GEA3_9BRAS; Uncharacterized protein (Fragment)
STRING	XP_006282126.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM566	20	126

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G65330.1	6e-95	AGAMOUS-like 78

Link Out ? help Back to Top
Phytozome	Carubv10028378m
Entrez Gene	17876258

Publications ? help Back to Top
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]