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 Lj2g3v1171110.1
Organism
Lotus japonicus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus
Family RAV
Protein Properties Length: 369aa    MW: 39951 Da    PI: 8.716
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lj2g3v1171110.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP243.39.1e-1457105155
              AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                      s+ykGV   + +grW A+I++      ++r++lg+f  ++eAa+a++ a+++++g
  Lj2g3v1171110.1  57 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAARAYDVAAQRFRG 105
                      89****9888.8*********3.....5**********99************998 PP
2B3772.1e-24185283194
                      EEEE-..-HHHHTT-EE--HHH.HTT.........---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.........ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                      f+k+ tpsdv+k++rlv+pk++ae+h         gg+  ++  ++    +g   +++++y+++s++yvltkGW++Fvk++ Lk+gD+v F+++
  Lj2g3v1171110.1 185 FEKAVTPSDVGKLNRLVIPKQHAEKHfplqsvgvaGGVA-GN--VS-AAAKGVLLNFRYSYWNSSQSYVLTKGWSRFVKEKCLKAGDSVCFHRS 274
                      89**************************99977755442.32..33.44899****************************************87 PP

                      SSSEE..EE CS
               B3  86 grsefelvv 94 
                         +++l++
  Lj2g3v1171110.1 275 TGPDRQLFI 283
                      556666655 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000181.04E-2557112No hitNo description
PfamPF008473.3E-957105IPR001471AP2/ERF domain
SuperFamilySSF541711.77E-1757113IPR016177DNA-binding domain
SMARTSM003808.7E-3058119IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.107.5E-2158113IPR001471AP2/ERF domain
PROSITE profilePS5103220.25758113IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.102.6E-32179290IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.57E-24182281IPR015300DNA-binding pseudobarrel domain
CDDcd100171.59E-22183274No hitNo description
PfamPF023622.3E-21185283IPR003340B3 DNA binding domain
SMARTSM010193.2E-14185291IPR003340B3 DNA binding domain
PROSITE profilePS5086310.602185291IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048573Biological Processphotoperiodism, flowering
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 369 aa     Download sequence    Send to blast
MDGSGSCIDE STTTESLSTP PPPPNSLCRV GSGASAVVDP EGSAGAGEAE SRKLPSSKYK  60
GVVPQPNGRW GAQIYEKHQR VWLGTFNEED EAARAYDVAA QRFRGKDAVT NFKPLAVSDG  120
GDCGGDDDDA EAEFLNSHSK SEIVDMLRKH TYNDELEQSK RSRGLVGRKR AAGEXXXXKA  180
REPLFEKAVT PSDVGKLNRL VIPKQHAEKH FPLQSVGVAG GVAGNVSAAA KGVLLNFRYS  240
YWNSSQSYVL TKGWSRFVKE KCLKAGDSVC FHRSTGPDRQ LFIDFKVRRT NANETAVLFG  300
SVGPVVEPVQ MVRLFGVNIL KLPGSDANAN NNNNHNAAAP MAGCCNGKRK EMELFTFECI  360
KKPKIIGAL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A2e-4218228811117DNA-binding protein RAV1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1347363KRKEMELFTFECIKKPK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Lja.89110.0floral bud
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00024PBMTransfer from AT1G25560Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapLj2g3v1171110.1
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_014521390.10.0AP2/ERF and B3 domain-containing transcription factor RAV1
SwissprotQ9C6M51e-127RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A1S3VSV90.0A0A1S3VSV9_VIGRR; AP2/ERF and B3 domain-containing transcription factor RAV1
STRINGGLYMA01G22260.10.0(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF29203274
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25560.11e-116RAV 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. 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]
  6. 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]