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 Csa03g029510.1
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: 363aa    MW: 40305.3 Da    PI: 9.4145
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa03g029510.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP239.71.2e-1268116155
             AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                     s+ykGV   + +grW A+I++      ++r++lg+f  +eeAa  ++ a+++++g
  Csa03g029510.1  68 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEEEAATSYDIAARRFRG 116
                     89****9888.8*********3.....5*************************98 PP

2B3102.91.8e-32192299196
                     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+
  Csa03g029510.1 192 FEKAVTPSDVGKLNRLVIPKQHAEKHfplpamttetgvSPSPAKGVLINLEDRTGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVCFE 286
                     89****************************99999988666789*************************************************** PP

                     E-SSSEE..EEEE CS
              B3  84 ldgrsefelvvkv 96 
                     ++   +++l++ +
  Csa03g029510.1 287 RSTGPDRQLYIDW 299
                     8766777777765 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000181.17E-2568123No hitNo description
SuperFamilySSF541719.81E-1768124IPR016177DNA-binding domain
PfamPF008474.9E-768116IPR001471AP2/ERF domain
PROSITE profilePS5103219.94169124IPR001471AP2/ERF domain
SMARTSM003807.3E-2869130IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.103.3E-2069124IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.101.5E-40185304IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.53E-31190294IPR015300DNA-binding pseudobarrel domain
CDDcd100171.36E-29191288No hitNo description
SMARTSM010198.2E-26192303IPR003340B3 DNA binding domain
PfamPF023624.4E-29192299IPR003340B3 DNA binding domain
PROSITE profilePS5086314.057192303IPR003340B3 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: 363 aa     Download sequence    Send to blast
MDYSCVVDDS STTSESLSIS TPKEMMNKLS SPPPSTTTRL YRMGSGGSSV VLDSDNGVET  60
ESRKLPSSKY KGVVPQPNGR WGAQIYEKHQ RVWLGTFNEE EEAATSYDIA ARRFRGRDAV  120
TNFKSPTTTD AESAFLDAHS KAEIVDMLRK HTYADELEQS RRKFVNGNGN RCGSETAVSS  180
NDAVSRAREV LFEKAVTPSD VGKLNRLVIP KQHAEKHFPL PAMTTETGVS PSPAKGVLIN  240
LEDRTGKVWR FRYSYWNSSQ SYVLTKGWSR FVKEKNLRAG DVVCFERSTG PDRQLYIDWK  300
VRSSPVQTVV RLFGVNIFNV TTTGPSNDVA VECGGGKKRS REDDLFSLGC PKKQTMMINN  360
IL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A2e-5718930311118DNA-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
PlantRegMapCsa03g029510.1
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_010499095.10.0PREDICTED: 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_010499095.10.0(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]