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

XP_009123305.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

MYB_related

Protein Properties

Length: 263aa MW: 29258 Da PI: 7.7618

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009123305.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	44.9	2.6e-14	39	83	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 r +WT+eE++++++a +++ + Wk+I +g +t q++s+ qky XP_009123305.1 39 RESWTEEEHDKFLEALQLFDRD-WKKIEDFVG-SKTVIQIRSHAQKY 83 789***************77.*****.***********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	9.72E-18	33	89	IPR009057	Homeodomain-like
PROSITE profile	PS51294	16.291	34	88	IPR017930	Myb domain
TIGRFAMs	TIGR01557	7.3E-19	37	86	IPR006447	Myb domain, plants
Gene3D	G3DSA:1.10.10.60	2.2E-7	37	89	IPR009057	Homeodomain-like
SMART	SM00717	1.1E-11	38	86	IPR001005	SANT/Myb domain
Pfam	PF00249	5.9E-12	39	83	IPR001005	SANT/Myb domain
CDD	cd00167	1.57E-9	41	84	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: 263 aa Download sequence Send to blast
MSSSTSRNQT AAEAQPSTDV VAEGSSKKVR KPYTITKSRE SWTEEEHDKF LEALQLFDRD 60 WKKIEDFVGS KTVIQIRSHA QKYFLKVQKN GTLAHVPPPR PKRKAAHPYP QKASKSAQMQ 120 LQVSTSWDDA SMLLNRVISP RQELATFRGP QADIGPKGIL NVSSPSTSGL GSSSRTFSGS 180 EIVAKQPPVL HVVPDFSEVY NFIGSVFDPE TRLDHVAKLK EMDPINFETV LLLMRNLTFN 240 LSNPEFESAP DCNDAAEESP LIT

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.31627	1e-123	root

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional activator of evening element (EE)-containing clock-controlled genes. Forms a negative feedback loop with APRR5. Regulates the pattern of histone H3 acetylation of the TOC1 promoter. {ECO:0000269\|PubMed:21205033, ECO:0000269\|PubMed:21474993, ECO:0000269\|PubMed:21483796, ECO:0000269\|PubMed:23638299}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009123305.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Circadian-regulation. Peak of expression in the afternoon. Down-regulated by cold. {ECO:0000269\|PubMed:21205033, ECO:0000269\|PubMed:22902701, ECO:0000269\|PubMed:23638299}.

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	AJ937213	1e-119	AJ937213.1 Arabidopsis thaliana mRNA for myb transcription factor LHY-CCA1-like5 (lcl5 gene), variant 1.
GenBank	AY550307	1e-119	AY550307.1 Arabidopsis thaliana MYB transcription factor (At3g09600) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009123305.1	0.0	PREDICTED: protein REVEILLE 8-like isoform X2
Swissprot	Q8RWU3	1e-154	RVE8_ARATH; Protein REVEILLE 8
TrEMBL	A0A398ATG5	0.0	A0A398ATG5_BRACM; Uncharacterized protein
TrEMBL	A0A398AZA3	0.0	A0A398AZA3_BRACM; Uncharacterized protein
STRING	Bra034074.1-P	0.0	(Brassica rapa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G09600.2	1e-139	MYB_related family protein

Publications ? help Back to Top
Manfield IW, et al. Arabidopsis Co-expression Tool (ACT): web server tools for microarray-based gene expression analysis. Nucleic Acids Res., 2006. 34(Web Server issue): p. W504-9 [PMID:16845059] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Fogelmark K,Troein C Rethinking transcriptional activation in the Arabidopsis circadian clock. PLoS Comput. Biol., 2014. 10(7): p. e1003705 [PMID:25033214] Xing H, et al. LNK1 and LNK2 recruitment to the evening element require morning expressed circadian related MYB-like transcription factors. Plant Signal Behav, 2015. 10(3): p. e1010888 [PMID:25848708] Gray JA,Shalit-Kaneh A,Chu DN,Hsu PY,Harmer SL The REVEILLE Clock Genes Inhibit Growth of Juvenile and Adult Plants by Control of Cell Size. Plant Physiol., 2017. 173(4): p. 2308-2322 [PMID:28254761]