PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Rsa1.0_02926.1_g00004.1
Organism
Raphanus sativus
Taxonomic ID
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: 90aa    MW: 10518.2 Da    PI: 10.436
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_02926.1_g00004.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding55.91e-171663148
                             TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
          Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                             rg+W++eEd++l+  ++++G ++W++ +++ g+ R++k+c++rw +yl
  Rsa1.0_02926.1_g00004.1 16 RGPWSPEEDLKLISFIQKFGHENWRSLPKKSGLLRCGKSCRLRWINYL 63
                             89******************************99************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.602.4E-25766IPR009057Homeodomain-like
PROSITE profilePS5129421.5731167IPR017930Myb domain
SMARTSM007171.2E-131565IPR001005SANT/Myb domain
PfamPF002493.8E-161663IPR001005SANT/Myb domain
SuperFamilySSF466891.28E-231790IPR009057Homeodomain-like
CDDcd001672.47E-101863No hitNo description
Gene3DG3DSA:1.10.10.605.4E-116790IPR009057Homeodomain-like
PROSITE profilePS512948.7186890IPR017930Myb domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 90 aa     Download sequence    Send to blast
MGKGRAPCCD KTKVKRGPWS PEEDLKLISF IQKFGHENWR SLPKKSGLLR CGKSCRLRWI  60
NYLRPDVKRG NFTAEEEETI IKLHQNYGNK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A3e-151690780B-MYB
1gv2_A3e-151690477MYB PROTO-ONCOGENE PROTEIN
1mse_C3e-151690477C-Myb DNA-Binding Domain
1msf_C3e-151690477C-Myb DNA-Binding Domain
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator that binds DNA to the AC cis-elements 5'-ACCTACC-3', 5'-ACCAACC-3' and 5'-ACCTAAC-3' of promoters and specifically activates lignin biosynthetic genes during secondary wall formation mediated by SND1. {ECO:0000269|PubMed:19122102}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_02926.1_g00004.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Slightly induced by UV light (PubMed:9839469). Triggered by salicylic acid and jasmonic acid (PubMed:16463103). Regulated by the SND1 close homologs NST1, NST2, VND6, and VND7 and their downstream targets MYB46 and MYB83 (PubMed:19122102, PubMed:22197883). {ECO:0000269|PubMed:16463103, ECO:0000269|PubMed:19122102, ECO:0000269|PubMed:22197883, ECO:0000269|PubMed:9839469}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1753441e-100AK175344.1 Arabidopsis thaliana mRNA for putative transcription factor (MYB63), complete cds, clone: RAFL21-78-M22.
GenBankAY5195721e-100AY519572.1 Arabidopsis thaliana MYB transcription factor (At1g79180) mRNA, complete cds.
GenBankBT0331251e-100BT033125.1 Arabidopsis thaliana unknown protein (At1g79180) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009104545.13e-61PREDICTED: myb-related protein Zm1-like
SwissprotQ6R0A64e-60MYB63_ARATH; Transcription factor MYB63
TrEMBLA0A397YN198e-60A0A397YN19_BRACM; Uncharacterized protein
TrEMBLA0A3P6BS438e-60A0A3P6BS43_BRACM; Uncharacterized protein
TrEMBLM4CHD68e-60M4CHD6_BRARP; Uncharacterized protein
STRINGBra003619.1-P1e-60(Brassica rapa)
STRINGBostr.20129s0353.1.p1e-60(Boechera stricta)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM4282646
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G79180.12e-62myb domain protein 63
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Noda S, et al.
    The expression of a rice secondary wall-specific cellulose synthase gene, OsCesA7, is directly regulated by a rice transcription factor, OsMYB58/63.
    Planta, 2015. 242(3): p. 589-600
    [PMID:26070439]
  3. Vargas L, et al.
    Improving total saccharification yield of Arabidopsis plants by vessel-specific complementation of caffeoyl shikimate esterase (cse) mutants.
    Biotechnol Biofuels, 2016. 9: p. 139
    [PMID:27390589]