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

Ciclev10012024m

Common Name

CICLE_v10012024mg

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

Dof

Protein Properties

Length: 365aa MW: 38330.3 Da PI: 9.0574

Description

Dof family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Ciclev10012024m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-Dof	123.9	5.2e-39	75	134	3	62
zf-Dof 3 ekalkcprCdstntkfCyynnyslsqPryfCkaCrryWtkGGalrnvPvGggrrknkkss 62 e+alkcprC+stntkfCy+nnyslsqPr+fCk+CrryWt+GGalrnvPvGgg+r+nk+s+ Ciclev10012024m 75 EAALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRRYWTRGGALRNVPVGGGCRRNKRSK 134 7789*****************************************************975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
ProDom	PD007478	4.0E-29	62	123	IPR003851	Zinc finger, Dof-type
Pfam	PF02701	8.3E-33	77	132	IPR003851	Zinc finger, Dof-type
PROSITE profile	PS50884	29.609	78	132	IPR003851	Zinc finger, Dof-type
PROSITE pattern	PS01361	0	80	116	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: 365 aa Download sequence Send to blast
MVFSSIPAYL DPANWQQQPN PQTGASTGVS TQFVQPQAPP PPPPQPHGSG GGGAGSIRPG 60 SMADRARMAN VPMPEAALKC PRCESTNTKF CYFNNYSLSQ PRHFCKTCRR YWTRGGALRN 120 VPVGGGCRRN KRSKGGSSGS SKSPVNSTDR QTASGNNSTS TMSCNNSGGA SDILGLGPQI 180 PQLRFMTPNL HHFTSEFPSG DIGLNYGSLT APPVANELNF GGSLLSSLSG LDQWRLQQQA 240 HHHQQFPFLG GLDSSSSSPS GLYPFEGGVE ASGYGVGGSA GQIRPKISST GIVSQLAAAA 300 APVKMEESSH HHHHQQQEIN LSRQFLGMQG NEHQYWSSTT AAGAAAAGWA DLSSFSSSST 360 SNPL*

Sequence ? help Back to Top

Protein Sequence Length: 365 aa Download sequence Send to blast

MVFSSIPAYL DPANWQQQPN PQTGASTGVS TQFVQPQAPP PPPPQPHGSG GGGAGSIRPG  60
SMADRARMAN VPMPEAALKC PRCESTNTKF CYFNNYSLSQ PRHFCKTCRR YWTRGGALRN  120
VPVGGGCRRN KRSKGGSSGS SKSPVNSTDR QTASGNNSTS TMSCNNSGGA SDILGLGPQI  180
PQLRFMTPNL HHFTSEFPSG DIGLNYGSLT APPVANELNF GGSLLSSLSG LDQWRLQQQA  240
HHHQQFPFLG GLDSSSSSPS GLYPFEGGVE ASGYGVGGSA GQIRPKISST GIVSQLAAAA  300
APVKMEESSH HHHHQQQEIN LSRQFLGMQG NEHQYWSSTT AAGAAAAGWA DLSSFSSSST  360
SNPL*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Specific to the midveins, containing narrow procambial cell files. Expressed in procambial cells of leaf primordia, roots and embryos, prior to the completion of xylem differentiation. {ECO:0000269\|PubMed:17583520}.
Uniprot	TISSUE SPECIFICITY: Specific to the vascular tissues (PubMed:17583520). The PEAR proteins (e.g. DOF2.4, DOF5.1, DOF3.2, DOF1.1, DOF5.6 and DOF5.3) form a short-range concentration gradient that peaks at protophloem sieve elements (PSE) (PubMed:30626969). {ECO:0000269\|PubMed:17583520, ECO:0000269\|PubMed:30626969}.

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). Probably involved in early processes for vascular development (PubMed:17583520). The PEAR proteins (e.g. DOF2.4, DOF5.1, DOF3.2, DOF1.1, DOF5.6 and DOF5.3) activate gene expression that promotes radial growth of protophloem sieve elements. Triggers the transcription of HD-ZIP III genes, especially in the central domain of vascular tissue (PubMed:30626969). {ECO:0000250\|UniProtKB:Q9M2U1, ECO:0000269\|PubMed:17583520, ECO:0000269\|PubMed:30626969}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By cytokinin in procambium. Antagonized by the HD-ZIP III proteins and by mobile miR165 and miR166 microRNAs. {ECO:0000269\|PubMed:30626969}.

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_006429066.1	0.0	dof zinc finger protein DOF2.4
Swissprot	O80928	3e-61	DOF24_ARATH; Dof zinc finger protein DOF2.4
TrEMBL	V4SYM6	0.0	V4SYM6_9ROSI; Uncharacterized protein
STRING	XP_006429066.1	0.0	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1713	28	86

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G37590.1	7e-42	DNA binding with one finger 2.4

Link Out ? help Back to Top
Phytozome	Ciclev10012024m
Entrez Gene	18039433

Publications ? help Back to Top
Heyndrickx KS,Vandepoele K Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol., 2012. 159(3): p. 884-901 [PMID:22589469] Miyashima S, et al. Mobile PEAR transcription factors integrate positional cues to prime cambial growth. Nature, 2019. 565(7740): p. 490-494 [PMID:30626969]