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_14620.1_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: 348aa MW: 38571.3 Da PI: 9.8785

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_14620.1_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	45.2	2.1e-14	48	92	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 r rWT E+ ++v+a k++G W++I +++g ++t+ q++s+ qk+ Rsa1.0_14620.1_g00001.1 48 RERWTDGEHYKFVEALKLYGRA-WRRIKEHVG-TKTAVQIRSHAQKF 92 78****************88.*****.**********98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	17.615	43	97	IPR017930	Myb domain
SuperFamily	SSF46689	3.14E-15	43	98	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01557	3.3E-15	46	95	IPR006447	Myb domain, plants
SMART	SM00717	2.0E-10	47	95	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	2.6E-7	48	88	IPR009057	Homeodomain-like
Pfam	PF00249	1.5E-11	48	91	IPR001005	SANT/Myb domain
CDD	cd00167	8.15E-8	50	93	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: 348 aa Download sequence Send to blast
MNSPRLTANA QGAKAPPRSR VEETSDTQIH FNDYAPKVRK PYIITKERER WTDGEHYKFV 60 EALKLYGRAW RRIKEHVGTK TAVQIRSHAQ KFFSKIAREA TEGSNGSSIV IPPPRPKRRP 120 MHPYPRKLGN EGDQTSRSVS PSERDNRSPT SVLSPVGSEA FGSSDSHSPN QSLSPVSSAS 180 PPAALASTSN APTKQSLKLF GKIVLVSADS DMSSSLTSST AYCKSPMQPL PQKLSMITNP 240 QEEVLSCWIQ SPPKQEVVEN RCLVSEMAVQ NEGSSTGSNT GSVDDTGHTD KNSEPETMVC 300 QWEFKPSERS AFSVLRKTTS ESNSRGFSPY KKRKMVIERE QEEIRLCL

Sequence ? help Back to Top

Protein Sequence Length: 348 aa Download sequence Send to blast

MNSPRLTANA QGAKAPPRSR VEETSDTQIH FNDYAPKVRK PYIITKERER WTDGEHYKFV  60
EALKLYGRAW RRIKEHVGTK TAVQIRSHAQ KFFSKIAREA TEGSNGSSIV IPPPRPKRRP  120
MHPYPRKLGN EGDQTSRSVS PSERDNRSPT SVLSPVGSEA FGSSDSHSPN QSLSPVSSAS  180
PPAALASTSN APTKQSLKLF GKIVLVSADS DMSSSLTSST AYCKSPMQPL PQKLSMITNP  240
QEEVLSCWIQ SPPKQEVVEN RCLVSEMAVQ NEGSSTGSNT GSVDDTGHTD KNSEPETMVC  300
QWEFKPSERS AFSVLRKTTS ESNSRGFSPY KKRKMVIERE QEEIRLCL

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_14620.1_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-136	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_018472728.1	0.0	PREDICTED: protein REVEILLE 1-like
Swissprot	F4KGY6	1e-173	RVE1_ARATH; Protein REVEILLE 1
TrEMBL	A0A0D3B1L5	0.0	A0A0D3B1L5_BRAOL; Uncharacterized protein
STRING	Bo3g012470.1	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-125	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]