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

Cc07_g12820

Common Name

GSCOC_T00036828001

Organism

Coffea canephora

Taxonomic ID

49390

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Rubiaceae; Ixoroideae; Coffeeae; Coffea

Family

MYB_related

Protein Properties

Length: 476aa MW: 52165.7 Da PI: 8.0442

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cc07_g12820	genome	CGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	50.7	4.2e-16	46	90	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 r rWT++E++++++a k++G W++I +++g ++t+ q++s+ qk+ Cc07_g12820 46 RERWTEDEHKKFLEALKLYGRA-WRRIEEHVG-TKTAVQIRSHAQKF 90 78****************88.*****.**********98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	3.07E-16	40	94	IPR009057	Homeodomain-like
PROSITE profile	PS51294	20.885	41	95	IPR017930	Myb domain
TIGRFAMs	TIGR01557	4.7E-17	44	93	IPR006447	Myb domain, plants
SMART	SM00717	7.1E-13	45	93	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	5.1E-9	46	86	IPR009057	Homeodomain-like
Pfam	PF00249	1.4E-13	46	89	IPR001005	SANT/Myb domain
CDD	cd00167	5.20E-10	48	91	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0007623	Biological Process	circadian rhythm
GO:0009734	Biological Process	auxin-activated signaling pathway
GO:0010600	Biological Process	regulation of auxin biosynthetic process
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 476 aa Download sequence Send to blast
MVIGNKMPLD MEVSSVRSIQ LTGQFRPGDD DYAQKVRKPY TITKQRERWT EDEHKKFLEA 60 LKLYGRAWRR IEEHVGTKTA VQIRSHAQKF FSKVVRESNN GDSGSVKPIE IPPPRPKRKP 120 LHPYPRKLSA SVKSGALALE KQSAAANICS PAEANQSPTS VLSAFGSDAP GVTDSSTPEG 180 SLSPVSSVIG GSSGFVLSEP PNLSPPKPNA SPSSSQVNNC SNQDEKLPLK LELFPEDNCF 240 VKEGSEEVSS TQCLKLFGKT VMVTDSCRPS SPTHLTCKMQ PPSHSDGKFA QALPWNFVPI 300 KYSQGDLERS WGALPFGTHG TLFCLPLGGE RSKPSETTPP SSLQWWTYQG GASFPFVRIH 360 SPIPIKASCF GDQRDVQDME IQKDGSSSDS NAECECAEAE SSRNLEAQSC QFLFAKEERA 420 QASSRPCETS FLELKAGSGK CTKGFVPYKR CLAERDARSV VNSEEREEQR IRLCL*

Sequence ? help Back to Top

Protein Sequence Length: 476 aa Download sequence Send to blast

MVIGNKMPLD MEVSSVRSIQ LTGQFRPGDD DYAQKVRKPY TITKQRERWT EDEHKKFLEA  60
LKLYGRAWRR IEEHVGTKTA VQIRSHAQKF FSKVVRESNN GDSGSVKPIE IPPPRPKRKP  120
LHPYPRKLSA SVKSGALALE KQSAAANICS PAEANQSPTS VLSAFGSDAP GVTDSSTPEG  180
SLSPVSSVIG GSSGFVLSEP PNLSPPKPNA SPSSSQVNNC SNQDEKLPLK LELFPEDNCF  240
VKEGSEEVSS TQCLKLFGKT VMVTDSCRPS SPTHLTCKMQ PPSHSDGKFA QALPWNFVPI  300
KYSQGDLERS WGALPFGTHG TLFCLPLGGE RSKPSETTPP SSLQWWTYQG GASFPFVRIH  360
SPIPIKASCF GDQRDVQDME IQKDGSSSDS NAECECAEAE SSRNLEAQSC QFLFAKEERA  420
QASSRPCETS FLELKAGSGK CTKGFVPYKR CLAERDARSV VNSEEREEQR IRLCL*

Functional Description ? help Back to Top
Source	Description
UniProt	Morning-phased transcription factor integrating the circadian clock and auxin pathways. Binds to the evening element (EE) of promoters. Does not act within the central clock, but regulates free auxin levels in a time-of-day specific manner. Positively regulates the expression of YUC8 during the day, but has no effect during the night. Negative regulator of freezing tolerance. {ECO:0000269\|PubMed:19805390, ECO:0000269\|PubMed:23240770}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00515	DAP	Transfer from AT5G17300	Download

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Circadian-regulation. Peak of transcript abundance near subjective dawn. Down-regulated and strongly decreased amplitude of circadian oscillation upon cold treatment. {ECO:0000269\|PubMed:19805390, ECO:0000269\|PubMed:23240770}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_027075006.1	0.0	protein REVEILLE 1-like isoform X1
Swissprot	F4KGY6	3e-60	RVE1_ARATH; Protein REVEILLE 1
TrEMBL	A0A068U097	0.0	A0A068U097_COFCA; Uncharacterized protein
STRING	XP_009790907.1	1e-137	(Nicotiana sylvestris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA3185	24	47

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G17300.1	4e-47	MYB_related family protein

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Xu G, et al. REVEILLE1 promotes NADPH: protochlorophyllide oxidoreductase A expression and seedling greening in Arabidopsis. Photosyn. Res., 2015. 126(2-3): p. 331-40 [PMID:25910753] Jiang Z,Xu G,Jing Y,Tang W,Lin R Phytochrome B and REVEILLE1/2-mediated signalling controls seed dormancy and germination in Arabidopsis. Nat Commun, 2016. 7: p. 12377 [PMID:27506149]