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

Carubv10020399m

Common Name

CARUB_v10020399mg

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

Dof

Protein Properties

Length: 406aa MW: 44596.1 Da PI: 9.2073

Description

Dof family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10020399m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-Dof	121.1	4.1e-38	134	194	2	62
zf-Dof 2 kekalkcprCdstntkfCyynnyslsqPryfCkaCrryWtkGGalrnvPvGggrrknkkss 62 ++k l+cprC+s ntkfCyynny+++qPryfC++C+ryWt+GG++rnvPvG+grrknk + Carubv10020399m 134 PDKLLPCPRCESGNTKFCYYNNYNVNQPRYFCRNCQRYWTAGGSMRNVPVGSGRRKNKGWG 194 78999****************************************************9875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
ProDom	PD007478	5.0E-30	131	191	IPR003851	Zinc finger, Dof-type
Pfam	PF02701	3.8E-31	136	191	IPR003851	Zinc finger, Dof-type
PROSITE profile	PS50884	28.463	138	192	IPR003851	Zinc finger, Dof-type
PROSITE pattern	PS01361	0	140	176	IPR003851	Zinc finger, Dof-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 406 aa Download sequence Send to blast
MSKSRDTEIK LFGRTITSLL DVKNHYDPSS LSPVHDVSSD QSKEGSSSSS SSSSCSPTIG 60 PNSRVPANKN EKENNRFKDP YILSDLNEPL KAVSEISSSP RSSKNNNCDQ QSEITTTTTT 120 STTSGEKSTA LKKPDKLLPC PRCESGNTKF CYYNNYNVNQ PRYFCRNCQR YWTAGGSMRN 180 VPVGSGRRKN KGWGSSNHYL QVTSEDCENN HSGTILSFGS SESSVTETGK HQSGDTTKIN 240 TGSVSQEHKN YQGFLPPQVM PPNNTSPWPY QWSPTGPNAS FYPIPLYWGC TVPICPTSET 300 SPCLGKRSRD HQTEGGINNT TTTTSTRARL VTESLRTNSE ATKSSVWSKL PTKPEKKTQG 360 FSLFNGFDTK GNSNTRNLVP ETSHSLQANP AAMSRAMNFR ESMQH*

Sequence ? help Back to Top

Protein Sequence Length: 406 aa Download sequence Send to blast

MSKSRDTEIK LFGRTITSLL DVKNHYDPSS LSPVHDVSSD QSKEGSSSSS SSSSCSPTIG  60
PNSRVPANKN EKENNRFKDP YILSDLNEPL KAVSEISSSP RSSKNNNCDQ QSEITTTTTT  120
STTSGEKSTA LKKPDKLLPC PRCESGNTKF CYYNNYNVNQ PRYFCRNCQR YWTAGGSMRN  180
VPVGSGRRKN KGWGSSNHYL QVTSEDCENN HSGTILSFGS SESSVTETGK HQSGDTTKIN  240
TGSVSQEHKN YQGFLPPQVM PPNNTSPWPY QWSPTGPNAS FYPIPLYWGC TVPICPTSET  300
SPCLGKRSRD HQTEGGINNT TTTTSTRARL VTESLRTNSE ATKSSVWSKL PTKPEKKTQG  360
FSLFNGFDTK GNSNTRNLVP ETSHSLQANP AAMSRAMNFR ESMQH*

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that binds specifically to a 5'-AA[AG]G-3' consensus core sequence (By similarity). Regulates a photoperiodic flowering response. Transcriptional repressor of 'CONSTANS' expression. {ECO:0000250, ECO:0000269\|PubMed:19619493}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00223	DAP	Transfer from AT1G69570	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10020399m

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Circadian-regulation. Highly expressed at the beginning of the light period, then decreases, reaching a minimum between 16 and 29 hours after dawn before rising again at the end of the day. {ECO:0000269\|PubMed:19619493}.

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK176346	0.0	AK176346.1 Arabidopsis thaliana mRNA for putative H-protein promoter binding factor-2b, complete cds, clone: RAFL24-04-C08.
GenBank	BT025623	0.0	BT025623.1 Arabidopsis thaliana At1g69570 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006302342.1	0.0	cyclic dof factor 5
Swissprot	Q9SEZ3	0.0	CDF5_ARATH; Cyclic dof factor 5
TrEMBL	R0IAS5	0.0	R0IAS5_9BRAS; Uncharacterized protein
STRING	XP_006302342.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13090	17	29

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G69570.1	0.0	Dof family protein

Link Out ? help Back to Top
Phytozome	Carubv10020399m
Entrez Gene	17895691

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] Henriques R, et al. The antiphasic regulatory module comprising CDF5 and its antisense RNA FLORE links the circadian clock to photoperiodic flowering. New Phytol., 2017. 216(3): p. 854-867 [PMID:28758689] Martín G, et al. Circadian Waves of Transcriptional Repression Shape PIF-Regulated Photoperiod-Responsive Growth in Arabidopsis. Curr. Biol., 2018. 28(2): p. 311-318.e5 [PMID:29337078]