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 mrna10330.1-v1.0-hybrid
Organism
Fragaria vesca
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria
Family RAV
Protein Properties Length: 328aa    MW: 37532.6 Da    PI: 7.9505
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
mrna10330.1-v1.0-hybridgenomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP240.75.9e-132169155
                      AP2  1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55
                             s+ykGV   + +grW A+I++      ++r++lg+f  +eeAaka++ a ++++g
  mrna10330.1-v1.0-hybrid 21 SRYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNGEEEAAKAYDIASLRFRG 69
                             78****9888.8*********3.....5**********************99997 PP
2B390.61.2e-28142231187
                              EEEE-..-HHHHTT-EE--HHH.HTT...---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                       B3   1 ffkvltpsdvlksgrlvlpkkfaeeh...ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                              f+kvltpsdv++++r+v+pk+ ae+h   + +k+e++ l +ed  g++W+++++++ +s++yvltkGW +Fvk++++ +gD+v F+
  mrna10330.1-v1.0-hybrid 142 FEKVLTPSDVGRLNRFVIPKQQAEKHfplMDSKAEGVLLNFEDDLGNVWRFRYCFWSSSQSYVLTKGWTRFVKEKKVTAGDVVRFH 227
                              99***************************88899**************************************************** PP

                              E-SS CS
                       B3  84 ldgr 87 
                               +++
  mrna10330.1-v1.0-hybrid 228 GSSS 231
                              6654 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541718.5E-152176IPR016177DNA-binding domain
CDDcd000187.59E-232179No hitNo description
PfamPF008472.5E-82169IPR001471AP2/ERF domain
PROSITE profilePS5103219.0062277IPR001471AP2/ERF domain
SMARTSM003804.4E-222283IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.105.4E-172277IPR001471AP2/ERF domain
PRINTSPR003679.2E-52334IPR001471AP2/ERF domain
PRINTSPR003679.2E-54359IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.107.3E-36136243IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.44E-28138230IPR015300DNA-binding pseudobarrel domain
CDDcd100172.58E-25140227No hitNo description
PROSITE profilePS5086312.619142246IPR003340B3 DNA binding domain
PfamPF023629.0E-26142236IPR003340B3 DNA binding domain
SMARTSM010191.5E-18142237IPR003340B3 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: 328 aa     Download sequence    Send to blast
MDLMNCFNEN ASDSNSKLPS SRYKGVVPQP NGRWGAQIYE KHQRVWLGTF NGEEEAAKAY  60
DIASLRFRGL DAITHLKQSS LSTTIDDHED ETFFLQSHSK AEIVDMLRKH SYTNELELFK  120
HKNAGKRMKY RDIIHTQKEW LFEKVLTPSD VGRLNRFVIP KQQAEKHFPL MDSKAEGVLL  180
NFEDDLGNVW RFRYCFWSSS QSYVLTKGWT RFVKEKKVTA GDVVRFHGSS SMGDDKKLFI  240
ECTPRNIDNE VSGYPEVPSP VEEPLMAPVQ DHDGVAISRC SLTAGKIHYS LVFEVPCLRS  300
IVASITFQIW PNTKVITSTD FRLAQRQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A7e-4113924611118DNA-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
PlantRegMapmrna10330.1-v1.0-hybrid
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011467826.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription repressor TEM1-like
SwissprotQ9C6M53e-92RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A3S8T9280.0A0A3S8T928_FRAAN; Transcription factor RAV5
STRINGXP_009349279.11e-123(Pyrus x bretschneideri)
STRINGXP_009371009.11e-123(Pyrus x bretschneideri)
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-94RAV 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]