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

Rsa1.0_00047.1_g00001.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

MYB_related

Protein Properties

Length: 372aa MW: 41326.3 Da PI: 9.1369

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00047.1_g00001.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	52.7	1e-16	46	90	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 r rWT eE+ ++++a k++G W++I +++g ++t+ q++s+ qk+ Rsa1.0_00047.1_g00001.1 46 RERWTDEEHNKFIEALKLHGRA-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	1.94E-16	40	96	IPR009057	Homeodomain-like
PROSITE profile	PS51294	20.94	41	95	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	4.0E-9	43	95	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01557	2.3E-15	44	93	IPR006447	Myb domain, plants
SMART	SM00717	3.3E-13	45	93	IPR001005	SANT/Myb domain
Pfam	PF00249	6.4E-14	46	89	IPR001005	SANT/Myb domain
CDD	cd00167	8.77E-10	48	91	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 372 aa Download sequence Send to blast
MAPSPLTTNV QSGKTTDKQK KIQSSDQEGN DYAPKVRKPY TITKERERWT DEEHNKFIEA 60 LKLHGRAWRR IEEHVGTKTA VQIRSHAQKF FSKVAKEASG GNGSSLEPIV IPPPRPKRKP 120 THPYPRKLGD QTSRSVSPSE RDNGSPTSVL STVGSSDSHS PNRSLSPVSS ASPPPAPPLA 180 TTEEELETLV ADKSKNLSTK LELFPIEPTK QSLKLFGKTV LVSDSGMSSY CKSPIIQPLP 240 RKLSRSETFP MVIMNPQEKL LSCWIHQQVP SKQEEVENRC SDSEKAVQNE GSSSTGSNTG 300 SVDDTGHTDK SGSEPAETMV CRWELKPSER SAFSELRRTN SESNSRGFGP YKKRKMVIET 360 EEEEQEQIRL CL

Sequence ? help Back to Top

Protein Sequence Length: 372 aa Download sequence Send to blast

MAPSPLTTNV QSGKTTDKQK KIQSSDQEGN DYAPKVRKPY TITKERERWT DEEHNKFIEA  60
LKLHGRAWRR IEEHVGTKTA VQIRSHAQKF FSKVAKEASG GNGSSLEPIV IPPPRPKRKP  120
THPYPRKLGD QTSRSVSPSE RDNGSPTSVL STVGSSDSHS PNRSLSPVSS ASPPPAPPLA  180
TTEEELETLV ADKSKNLSTK LELFPIEPTK QSLKLFGKTV LVSDSGMSSY CKSPIIQPLP  240
RKLSRSETFP MVIMNPQEKL LSCWIHQQVP SKQEEVENRC SDSEKAVQNE GSSSTGSNTG  300
SVDDTGHTDK SGSEPAETMV CRWELKPSER SAFSELRRTN SESNSRGFGP YKKRKMVIET  360
EEEEQEQIRL CL

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00047.1_g00001.1

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	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK353109	1e-119	AK353109.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-17-B24.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018443088.1	0.0	PREDICTED: protein REVEILLE 1
Swissprot	F4KGY6	1e-168	RVE1_ARATH; Protein REVEILLE 1
TrEMBL	A0A397XLG7	0.0	A0A397XLG7_BRACM; Uncharacterized protein
STRING	Bo9g161410.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6356	26	44

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G17300.1	1e-139	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]