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

Carubv10017140m

Common Name

CARUB_v10017140mg

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: 477aa MW: 52916.4 Da PI: 6.5135

Description

Dof family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10017140m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-Dof	126	1.2e-39	133	193	2	62
zf-Dof 2 kekalkcprCdstntkfCyynnyslsqPryfCkaCrryWtkGGalrnvPvGggrrknkkss 62 ++k+l+cprC+s++tkfCyynny+++qPr+fCkaC+ryWt+GG++rnvPvG+grrknk+ss Carubv10017140m 133 PTKILPCPRCKSMDTKFCYYNNYNINQPRHFCKACQRYWTAGGTMRNVPVGAGRRKNKSSS 193 67899*****************************************************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
ProDom	PD007478	3.0E-31	130	190	IPR003851	Zinc finger, Dof-type
Pfam	PF02701	5.6E-32	135	191	IPR003851	Zinc finger, Dof-type
PROSITE profile	PS50884	28.649	137	191	IPR003851	Zinc finger, Dof-type
PROSITE pattern	PS01361	0	139	175	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: 477 aa Download sequence Send to blast
ERERERDYRH STKLSRMMME SRDPAIKLFG MKIPFPAVFE SPPVTVDEEE EEEDDWSGGD 60 GGDDKSSEDN KVTPELPDKN CNDNSLNNSN ESKPETGDKE EETTSTDQIE SSDSPDDGSN 120 QQTTADGKVL KKPTKILPCP RCKSMDTKFC YYNNYNINQP RHFCKACQRY WTAGGTMRNV 180 PVGAGRRKNK SSSSHYRHIT ISEALEAARL DPGLQANTRV LSFGLDAHQQ HAAAPMAPVM 240 NLQGNQKVSN GAQNVFHGVA DQRLVARVEN GDDCSSGSSV TTSNNHSVDE SRPQSCRVGE 300 PQMNNNNNMN GYACIPGVPW PYTWNPSMPP PGFYPPPGFP MPFYPYWTIP MVSPHQSSSP 360 MSQKASNPNS PTLGKHPRDE ESARKDNETE QRKQRNGVLV PKTLRIDDPN EAAKSSIWTT 420 LGIKNDGMMS KGGGMFKGFD DQKTKMNNNN DKTENSPLRS ANPAALSRSH NFHERV*

Sequence ? help Back to Top

Protein Sequence Length: 477 aa Download sequence Send to blast

ERERERDYRH STKLSRMMME SRDPAIKLFG MKIPFPAVFE SPPVTVDEEE EEEDDWSGGD  60
GGDDKSSEDN KVTPELPDKN CNDNSLNNSN ESKPETGDKE EETTSTDQIE SSDSPDDGSN  120
QQTTADGKVL KKPTKILPCP RCKSMDTKFC YYNNYNINQP RHFCKACQRY WTAGGTMRNV  180
PVGAGRRKNK SSSSHYRHIT ISEALEAARL DPGLQANTRV LSFGLDAHQQ HAAAPMAPVM  240
NLQGNQKVSN GAQNVFHGVA DQRLVARVEN GDDCSSGSSV TTSNNHSVDE SRPQSCRVGE  300
PQMNNNNNMN GYACIPGVPW PYTWNPSMPP PGFYPPPGFP MPFYPYWTIP MVSPHQSSSP  360
MSQKASNPNS PTLGKHPRDE ESARKDNETE QRKQRNGVLV PKTLRIDDPN EAAKSSIWTT  420
LGIKNDGMMS KGGGMFKGFD DQKTKMNNNN DKTENSPLRS ANPAALSRSH NFHERV*

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
MP00394	DAP	Transfer from AT3G47500	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10017140m

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	AY084628	0.0	AY084628.1 Arabidopsis thaliana clone 113639 mRNA, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006291025.2	0.0	cyclic dof factor 3
Swissprot	Q8LFV3	0.0	CDF3_ARATH; Cyclic dof factor 3
TrEMBL	R0HJB1	0.0	R0HJB1_9BRAS; Uncharacterized protein (Fragment)
STRING	XP_006291025.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5441	28	48

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G47500.1	0.0	cycling DOF factor 3

Link Out ? help Back to Top
Phytozome	Carubv10017140m
Entrez Gene	17887004

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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Corrales AR, et al. Multifaceted role of cycling DOF factor 3 (CDF3) in the regulation of flowering time and abiotic stress responses in Arabidopsis. Plant Cell Environ., 2017. 40(5): p. 748-764 [PMID:28044345] Renau-Morata B, et al. Ectopic Expression of CDF3 Genes in Tomato Enhances Biomass Production and Yield under Salinity Stress Conditions. Front Plant Sci, 2017. 8: p. 660 [PMID:28515731] 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]