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 Ciclev10031846m
Common NameCICLE_v10031846mg
Organism
Citrus clementina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family RAV
Protein Properties Length: 378aa    MW: 41913.2 Da    PI: 9.0747
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10031846mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP245.81.5e-1469117155
              AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                      s+ykGV   + +grW A+I++      ++r++lg+f  +eeAa+a++ a+++++g
  Ciclev10031846m  69 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEEEAARAYDIAAQRFRG 117
                      89****9888.8*********3.....5*************************98 PP
2B3101.64.4e-32207306196
                      EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 
                      f+k+ tpsdv+k++rlv+pk++ae+h    +g++ ++  l +ed +g++W+++++y+++s++yvltkGW++Fvk+++Lk+gD+v F+++   ++
  Ciclev10031846m 207 FEKAVTPSDVGKLNRLVIPKQHAEKHfplqSGSTSKGLLLNFEDVTGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGDIVSFHRSTGGDR 300
                      89****************************77888999*************************************************8766777 PP

                      ..EEEE CS
               B3  91 elvvkv 96 
                      +l++ +
  Ciclev10031846m 301 QLYIDW 306
                      777766 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541717.19E-1869125IPR016177DNA-binding domain
PfamPF008472.1E-969117IPR001471AP2/ERF domain
CDDcd000183.96E-2769124No hitNo description
Gene3DG3DSA:3.30.730.102.8E-2170126IPR001471AP2/ERF domain
PROSITE profilePS5103220.65370125IPR001471AP2/ERF domain
SMARTSM003801.4E-2970131IPR001471AP2/ERF domain
PRINTSPR003674.8E-57182IPR001471AP2/ERF domain
PRINTSPR003674.8E-591107IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.101.3E-40202310IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.75E-30206308IPR015300DNA-binding pseudobarrel domain
CDDcd100179.17E-29206304No hitNo description
PROSITE profilePS5086314.48207310IPR003340B3 DNA binding domain
SMARTSM010194.9E-25207310IPR003340B3 DNA binding domain
PfamPF023622.5E-29207307IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 378 aa     Download sequence    Send to blast
MKREEMDGSC MDESTTTDSA STSPPITFPA SIPPTKSPES LCRVGSGASS VILDSEAGVE  60
AESRKLPSSK YKGVVPQPNG RWGAQIYEKH QRVWLGTFNE EEEAARAYDI AAQRFRGRDA  120
VTNFKQMSCA GTSSDEGDIE MAFLSSHSKS EIVDMLRKHT YNDELEQSKR NYGLDANGKR  180
VIKHGEGDGV ATAFGSDRVL KARDQLFEKA VTPSDVGKLN RLVIPKQHAE KHFPLQSGST  240
SKGLLLNFED VTGKVWRFRY SYWNSSQSYV LTKGWSRFVK EKNLKAGDIV SFHRSTGGDR  300
QLYIDWKART GPVENPVEPV QMMRLFGVNI FKIPGNGLVG VDKIGCNINN NNDGKRLREM  360
ELLSIECSKK QRMIGAS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A5e-5920431111119DNA-binding protein RAV1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Ccl.68750.0abscission zone| root
Functional Description ? help Back to Top
Source Description
UniProtProbably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Transcriptional repressor of flowering time on long day plants. Acts directly on FT expression by binding 5'-CAACA-3' and 5'-CACCTG-3 sequences (Probable). Functionally redundant with TEM1. {ECO:0000250, ECO:0000269|PubMed:18718758, ECO:0000305}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00025PBMTransfer from AT1G68840Download
Motif logo
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_006437734.10.0AP2/ERF and B3 domain-containing transcription repressor RAV2
SwissprotP822801e-154RAV2_ARATH; AP2/ERF and B3 domain-containing transcription repressor RAV2
TrEMBLV4VES50.0V4VES5_9ROSI; Uncharacterized protein
STRINGXP_006437734.10.0(Citrus clementina)
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
AT1G68840.21e-155related to ABI3/VP1 2
Publications ? help Back to Top
  1. 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]
  2. 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]
  3. Sun YW, et al.
    Attenuation of Histone Methyltransferase KRYPTONITE-mediated transcriptional gene silencing by Geminivirus.
    Sci Rep, 2015. 5: p. 16476
    [PMID:26602265]
  4. Mittal A,Jiang Y,Ritchie GL,Burke JJ,Rock CD
    AtRAV1 and AtRAV2 overexpression in cotton increases fiber length differentially under drought stress and delays flowering.
    Plant Sci., 2015. 241: p. 78-95
    [PMID:26706061]
  5. 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]
  6. Li P, et al.
    The Arabidopsis UGT87A2, a stress-inducible family 1 glycosyltransferase, is involved in the plant adaptation to abiotic stresses.
    Physiol Plant, 2017. 159(4): p. 416-432
    [PMID:27747895]