PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Csa17g034910.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina
Family RAV
Protein Properties Length: 364aa    MW: 40376.4 Da    PI: 9.551
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa17g034910.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP239.71.2e-1270118155
             AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                     s+ykGV   + +grW A+I++      ++r++lg+f  +eeAa  ++ a+++++g
  Csa17g034910.1  70 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEEEAATSYDIAARRFRG 118
                     89****9888.8*********3.....5*************************98 PP

2B3102.62.2e-32194302196
                     EEEE-..-HHHHTT-EE--HHH.HTT.............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                     f+k+ tpsdv+k++rlv+pk++ae+h             + ++++++ + led++g++W+++++y+++s++yvltkGW++Fvk+++L++gD+v F
  Csa17g034910.1 194 FEKAVTPSDVGKLNRLVIPKQHAEKHfplpamtttamgmSPSPAKGVLINLEDRTGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVCF 288
                     89*****************************99999988666789************************************************** PP

                     EE-SSSEE..EEEE CS
              B3  83 kldgrsefelvvkv 96 
                     +++   +++l++ +
  Csa17g034910.1 289 ERSTGPDRQLYIDW 302
                     *8766777777765 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000182.26E-2570125No hitNo description
SuperFamilySSF541719.81E-1770126IPR016177DNA-binding domain
PfamPF008475.0E-770118IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.103.3E-2071126IPR001471AP2/ERF domain
SMARTSM003807.3E-2871132IPR001471AP2/ERF domain
PROSITE profilePS5103219.94171126IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.101.6E-40187307IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.92E-31192297IPR015300DNA-binding pseudobarrel domain
CDDcd100173.71E-29193291No hitNo description
PfamPF023624.0E-29194302IPR003340B3 DNA binding domain
SMARTSM010192.2E-25194306IPR003340B3 DNA binding domain
PROSITE profilePS5086313.972194306IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 364 aa     Download sequence    Send to blast
MDYSCVVDDS STTSESLSIS TPKEMMNKLS SPPPPPSTTT RLYRMGSGGS SVVLDSDNGV  60
ETESRKLPSS KYKGVVPQPN GRWGAQIYEK HQRVWLGTFN EEEEAATSYD IAARRFRGRD  120
AVTNFKSPTT TDAESAFLDA HSKAEIVDML RKHTYADELE QSRRKFVNGN GNRCGSETAV  180
SSNDAVSRAR EVLFEKAVTP SDVGKLNRLV IPKQHAEKHF PLPAMTTTAM GMSPSPAKGV  240
LINLEDRTGK VWRFRYSYWN SSQSYVLTKG WSRFVKEKNL RAGDVVCFER STGPDRQLYI  300
DWKVRSSPVQ TVVRLFGVNI FNVTTTGNPN DVAVECGGGK KRSREDDLFS LGCSKKQTMI  360
NIL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A2e-5719130611118DNA-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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCsa17g034910.1
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0792810.0AC079281.4 Arabidopsis thaliana chromosome 1 BAC F2J7 genomic sequence, complete sequence.
GenBankAY0910690.0AY091069.1 Arabidopsis thaliana putative DNA-binding protein RAV2 (At1g25560) mRNA, complete cds.
GenBankAY1229410.0AY122941.1 Arabidopsis thaliana putative DNA-binding protein RAV2 (At1g25560) mRNA, complete cds.
GenBankCP0026840.0CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010477910.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription repressor TEM1-like
SwissprotQ9C6M50.0RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLD7KQU40.0D7KQU4_ARALL; Uncharacterized protein
STRINGXP_010477910.10.0(Camelina sativa)
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. 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]