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 augustus_masked-scaffold07852-abinit-gene-0.2-mRNA-1
Organism
Castanea mollissima
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Fagaceae; Castanea
Family RAV
Protein Properties Length: 382aa    MW: 42518.6 Da    PI: 9.2456
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
augustus_masked-scaffold07852-abinit-gene-0.2-mRNA-1genomeTHGPView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP243.96.1e-1468116155
                                                   AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                                                           s+ykGV   + +grW A+I++      ++r++lg+f  ++eAaka++ a+++++g
  augustus_masked-scaffold07852-abinit-gene-0.2-mRNA-1  68 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAAKAYDIAAQRFRG 116
                                                           89****9888.8*********3.....5**********99*************98 PP
2B397.21.1e-30209312195
                                                           EEEE-..-HHHHTT-EE--HHH.HTT.........---..--SEEEEEETTS-EEEE CS
                                                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.........ggkkeesktltledesgrsWev 48 
                                                           f+k+ tpsdv+k++rlv+pk++ae+h         +  + ++  l +ed  g++W++
  augustus_masked-scaffold07852-abinit-gene-0.2-mRNA-1 209 FEKAVTPSDVGKLNRLVIPKQHAEKHfplqnsgsnSTTSSKGLLLNFEDVGGKVWRF 265
                                                           89***************************999766333347789************* PP

                                                           EE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS
                                                    B3  49 kliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95 
                                                           +++y+++s++yvltkGW++Fvk+++Lk+gD+v F+++   + +l++ 
  augustus_masked-scaffold07852-abinit-gene-0.2-mRNA-1 266 RYSYWNSSQSYVLTKGWSRFVKEKNLKAGDIVSFHRSTGPDNQLFIE 312
                                                           ***********************************876566666665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008479.4E-968116IPR001471AP2/ERF domain
CDDcd000186.40E-2668123No hitNo description
SuperFamilySSF541717.19E-1768124IPR016177DNA-binding domain
PROSITE profilePS5103220.12669124IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.107.6E-2069124IPR001471AP2/ERF domain
SMARTSM003801.2E-2669130IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.103.3E-41201325IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019366.15E-30207312IPR015300DNA-binding pseudobarrel domain
CDDcd100173.72E-28208302No hitNo description
SMARTSM010191.6E-24209317IPR003340B3 DNA binding domain
PROSITE profilePS5086313.902209316IPR003340B3 DNA binding domain
PfamPF023626.9E-28209313IPR003340B3 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: 382 aa     Download sequence    Send to blast
MDGSCIDEST TSDSMSVSPA TTQSPFPSPT NITKSPESLC RVGSGTTSTL ILDSESGIEA  60
ESRKLPSSKY KGVVPQPNGR WGAQIYEKHQ RVWLGTFNEE DEAAKAYDIA AQRFRGRDAV  120
TNFKPCGTTD HHHHHHHHQE DDIETVFLNS HSKAEIVDML RKHTYNDELE QSKRNYGLDS  180
TRRSKGESLG HGLLERVNYY SMKAREQLFE KAVTPSDVGK LNRLVIPKQH AEKHFPLQNS  240
GSNSTTSSKG LLLNFEDVGG KVWRFRYSYW NSSQSYVLTK GWSRFVKEKN LKAGDIVSFH  300
RSTGPDNQLF IEWKARAGPS SSSSSNPVQM VRLFGVNILK IPGVGGVVES SNIGGCNGGK  360
RMREMDLLAL ECSKKQRIVG AL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A6e-5820631811119DNA-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
GenBankJN5958880.0JN595888.1 Castanea sativa RAV1 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023872247.10.0AP2/ERF and B3 domain-containing transcription factor RAV1-like
SwissprotQ9C6M51e-145RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLH9MHJ70.0H9MHJ7_CASSA; RAV1
STRINGXP_002524409.10.0(Ricinus communis)
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-142RAV 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]