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 DCAR_007228
Organism
Daucus carota
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; campanulids; Apiales; Apiineae; Apiaceae; Apioideae; Scandiceae; Daucinae; Daucus
Family RAV
Protein Properties Length: 358aa    MW: 40120.4 Da    PI: 9.486
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
DCAR_007228genomeARS-USDAView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP241.34e-1369117155
          AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                  s++kGV   + +grW A+I++      ++r++lg+f  + eAaka++ a+++++g
  DCAR_007228  69 SKFKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEHEAAKAYDIAAQRFRG 117
                  79****9888.8*********3.....5**********99*************98 PP
2B3101.93.5e-32188289198
                  EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS
           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94 
                  f+k+ tpsdv+k++rlv+pk++ae+h    +g + +++ l +ed  g++W+++++y+++s++yvltkGW++Fvk++gLk+gD+v F++++  +++l++
  DCAR_007228 188 FEKAVTPSDVGKLNRLVIPKQHAEKHfplqNGATSKGVLLNFEDVVGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKGLKAGDVVNFQRSSGPDKQLYI 285
                  89***************************9888889***************************************************98888888888 PP

                  EEE- CS
           B3  95 kvfr 98 
                   + +
  DCAR_007228 286 DWKE 289
                  8765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000182.50E-2669124No hitNo description
SuperFamilySSF541711.9E-1669125IPR016177DNA-binding domain
PfamPF008475.0E-869117IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.102.3E-1970125IPR001471AP2/ERF domain
SMARTSM003807.7E-2970131IPR001471AP2/ERF domain
PROSITE profilePS5103219.55970125IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.101.3E-40182290IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.14E-30185288IPR015300DNA-binding pseudobarrel domain
CDDcd100179.56E-28186276No hitNo description
SMARTSM010191.6E-24188291IPR003340B3 DNA binding domain
PROSITE profilePS5086314.212188291IPR003340B3 DNA binding domain
PfamPF023624.0E-29188290IPR003340B3 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: 358 aa     Download sequence    Send to blast
MDGSCIDEQS TTSDSLPISQ TSSPPSIIFT SLPLKNSPER LCRMGSGASV VLDSENNGLE  60
AESRKLPSSK FKGVVPQPNG RWGAQIYEKH QRVWLGTFNE EHEAAKAYDI AAQRFRGRDA  120
VTNFKPLLDT EDETNFLNSH SKAEIVDMLR KHTYNDELEQ SKRNCGFQKW SHGNSMCDKI  180
VSAREHLFEK AVTPSDVGKL NRLVIPKQHA EKHFPLQNGA TSKGVLLNFE DVVGKVWRFR  240
YSYWNSSQSY VLTKGWSRFV KEKGLKAGDV VNFQRSSGPD KQLYIDWKER TGPGLVTAAP  300
VQMVRLFGVN IFKVPSHGVA GVNNNVNDDQ VSFCNGKRRL EMLGLDCNKK QRIINVV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A3e-5818530011127DNA-binding protein RAV1
Search in ModeBase
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
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankGQ2279922e-41GQ227992.1 Camellia sinensis RAV transcription factor mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_017236821.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription factor RAV1-like
SwissprotQ9C6M51e-150RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A166ECT30.0A0A166ECT3_DAUCS; Uncharacterized protein
STRINGVIT_01s0011g03070.t011e-172(Vitis vinifera)
STRINGXP_009613275.11e-172(Nicotiana tomentosiformis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA29582453
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25560.11e-146RAV 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]