PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT2G13960.1
Organism
Arabidopsis thaliana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family MYB_related
Protein Properties Length: 150aa    MW: 17056.4 Da    PI: 8.6153
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AT2G13960.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding58.71.3e-1875121148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      +g WT+eEde l +av+++ g++Wk+Ia+ ++  Rt  qc +rwqk+l
      AT2G13960.1  75 KGGWTPEEDETLRRAVEKYKGKRWKKIAEFFP-ERTQVQCLHRWQKVL 121
                      688*****************************.************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129424.27970125IPR017930Myb domain
SuperFamilySSF466894.14E-1972133IPR009057Homeodomain-like
SMARTSM007175.8E-1674123IPR001005SANT/Myb domain
PfamPF002496.4E-1775121IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.2E-2277133IPR009057Homeodomain-like
CDDcd001675.67E-1578121No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006357Biological Processregulation of transcription from RNA polymerase II promoter
GO:0030154Biological Processcell differentiation
GO:0005634Cellular Componentnucleus
GO:0016021Cellular Componentintegral component of membrane
GO:0000981Molecular FunctionRNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0001135Molecular Functiontranscription factor activity, RNA polymerase II transcription factor recruiting
GO:0043565Molecular Functionsequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000293anatomyguard cell
PO:0025195anatomypollen tube cell
PO:0025281anatomypollen
PO:0001017developmental stageM germinated pollen stage
Sequence ? help Back to Top
Protein Sequence    Length: 150 aa     Download sequence    Send to blast
MSSSSNPPVC SPEKEERSEM KIEIQCMENK QPLAASCSSA SEGSGCFFLK SPEIATPATV  60
SSFPRRTSGP MRRAKGGWTP EEDETLRRAV EKYKGKRWKK IAEFFPERTQ VQCLHRWQKV  120
LNPELVKGPW TQEVLLSFSC SETFFGFHFT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1h88_C2e-1974133564MYB PROTO-ONCOGENE PROTEIN
1h89_C2e-1974133564MYB PROTO-ONCOGENE PROTEIN
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.649260.0inflorescence
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO425690170.0
Genevisible265301_s_at1e-110
Expression AtlasAT2G13960-
AtGenExpressAT2G13960-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed both in proliferating and maturing stages of leaves. {ECO:0000269|PubMed:26069325}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that binds 5'-AACGG-3' motifs in gene promoters (By similarity). Transcription repressor that regulates organ growth. Binds to the promoters of G2/M-specific genes and to E2F target genes to prevent their expression in post-mitotic cells and to restrict the time window of their expression in proliferating cells (PubMed:26069325). {ECO:0000250|UniProtKB:Q94FL9, ECO:0000269|PubMed:26069325}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT2G13960.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Slightly induced by ethylene and salicylic acid (SA). {ECO:0000269|PubMed:16463103}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT2G13960
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0247580.0BT024758.1 Arabidopsis thaliana At2g13960 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_179013.21e-107Homeodomain-like superfamily protein
SwissprotQ6R0326e-91MB3R5_ARATH; Transcription factor MYB3R-5
TrEMBLQ29PZ81e-105Q29PZ8_ARATH; At2g13960
STRINGAT2G13960.11e-106(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM3044222
Representative plantOGRP5171784
Publications ? help Back to Top
  1. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  2. Wu XM,Lim SH,Yang WC
    Characterization, expression and phylogenetic study of R2R3-MYB genes in orchid.
    Plant Mol. Biol., 2003. 51(6): p. 959-72
    [PMID:12777054]
  3. Yanhui C, et al.
    The MYB transcription factor superfamily of Arabidopsis: expression analysis and phylogenetic comparison with the rice MYB family.
    Plant Mol. Biol., 2006. 60(1): p. 107-24
    [PMID:16463103]
  4. Wang Y, et al.
    Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis.
    Plant Physiol., 2008. 148(3): p. 1201-11
    [PMID:18775970]
  5. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  6. Kobayashi K, et al.
    Transcriptional repression by MYB3R proteins regulates plant organ growth.
    EMBO J., 2015. 34(15): p. 1992-2007
    [PMID:26069325]
  7. Chen P, et al.
    Arabidopsis R1R2R3-Myb proteins are essential for inhibiting cell division in response to DNA damage.
    Nat Commun, 2017. 8(1): p. 635
    [PMID:28935922]