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 GSBRNA2T00026623001
Common NameGSBRNA2T00026623001
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family RAV
Protein Properties Length: 339aa    MW: 37990.8 Da    PI: 9.8649
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00026623001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP2409.7e-1360108155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                          s++kGV   + +grW A+I++      ++r++lg+f  +eeAa+ ++ a+++++g
  GSBRNA2T00026623001  60 SKFKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEEEAAASYDIAARRFRG 108
                          79****9888.8*********3.....5*************************98 PP
2B3104.94.2e-33171273196
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f+k+ tpsdv+k++rlv+pk++ae+h         ++++++ + led++g++W+++++y+++s++yvltkGW++Fvk+++L++gD+v F+
  GSBRNA2T00026623001 171 FEKAVTPSDVGKLNRLVIPKQHAEKHfplpvsvTPSPTKGVLINLEDRTGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVCFE 260
                          89****************************9996677899************************************************** PP

                          E-SSSEE..EEEE CS
                   B3  84 ldgrsefelvvkv 96 
                          +++  +++l++ +
  GSBRNA2T00026623001 261 RSSGPDQQLYIDW 273
                          8877777777765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000184.41E-2560115No hitNo description
SuperFamilySSF541712.88E-1660116IPR016177DNA-binding domain
PfamPF008477.3E-760108IPR001471AP2/ERF domain
PROSITE profilePS5103219.45461116IPR001471AP2/ERF domain
SMARTSM003801.7E-2861122IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.3E-1961116IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.102.4E-41165285IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.05E-32167273IPR015300DNA-binding pseudobarrel domain
CDDcd100174.61E-30170262No hitNo description
PROSITE profilePS5086314.522171277IPR003340B3 DNA binding domain
PfamPF023621.6E-29171273IPR003340B3 DNA binding domain
SMARTSM010195.5E-26171277IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 339 aa     Download sequence    Send to blast
MDYSCIDDNT SNTSETLSMS KKTPPQATMR LYRMGSGGSS VVLDLENGVE TESSRKLPSS  60
KFKGVVPQPN GRWGAQIYEK HQRVWLGTFN EEEEAAASYD IAARRFRGRD AVTNFKSPSS  120
DAESAFLEAH SKAEIVDMLR KHTYADELRQ SERKFLDGDG NGKKRREEVL FEKAVTPSDV  180
GKLNRLVIPK QHAEKHFPLP VSVTPSPTKG VLINLEDRTG KVWRFRYSYW NSSQSYVLTK  240
GWSRFVKEKN LRAGDVVCFE RSSGPDQQLY IDWKVRSGIE KTTSVQTVVR LFGVNIFNAT  300
TNANTNDAVG ESSSKKRSRE VDLFALGCSK KQAIINVL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A2e-5916827811119DNA-binding protein RAV1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.52060.0flower| leaf| seed
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in leaves. {ECO:0000269|PubMed:18718758}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional repressor of flowering time on long day plants. Acts directly on FT expression by binding 5'-CAACA-3' and 5'-CACCTG-3 sequences. Functionally redundant with TEM2. {ECO:0000269|PubMed:18718758}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00026623001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Expressed with a circadian rhythm showing a peak at dawn. {ECO:0000269|PubMed:18718758}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013622296.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription repressor TEM1
RefseqXP_013657185.10.0AP2/ERF and B3 domain-containing transcription repressor TEM1-like
SwissprotQ9C6M50.0RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A078GG810.0A0A078GG81_BRANA; BnaCnng04580D protein
STRINGBo3g138550.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM84827121
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25560.10.0RAV family protein
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. Choi D, et al.
    iNID: an analytical framework for identifying network models for interplays among developmental signaling in Arabidopsis.
    Mol Plant, 2014. 7(5): p. 792-813
    [PMID:24380880]
  3. Sgamma T,Jackson A,Muleo R,Thomas B,Massiah A
    TEMPRANILLO is a regulator of juvenility in plants.
    Sci Rep, 2014. 4: p. 3704
    [PMID:24424565]
  4. Matías-Hernández L,Aguilar-Jaramillo AE,Marín-González E,Suárez-López P,Pelaz S
    RAV genes: regulation of floral induction and beyond.
    Ann. Bot., 2014. 114(7): p. 1459-70
    [PMID:24812253]
  5. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  6. Marín-González E, et al.
    SHORT VEGETATIVE PHASE Up-Regulates TEMPRANILLO2 Floral Repressor at Low Ambient Temperatures.
    Plant Physiol., 2015. 169(2): p. 1214-24
    [PMID:26243615]
  7. Matías-Hernández L, et al.
    TEMPRANILLO Reveals the Mesophyll as Crucial for Epidermal Trichome Formation.
    Plant Physiol., 2016. 170(3): p. 1624-39
    [PMID:26802039]