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 Potri.010G129200.1
Common NamePOPTR_0010s13930g
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family RAV
Protein Properties Length: 402aa    MW: 44955.3 Da    PI: 9.6858
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.010G129200.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP243.96e-14104152155
                 AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                         s+ykGV   + +grW A+I++      ++r++lg+f  ++eAa+a++ a+++++g
  Potri.010G129200.1 104 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEENEAARAYDIAAQRFRG 152
                         89****9888.8*********3.....5*************************98 PP
2B3103.51.2e-32240340195
                         EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                         f+k+ tpsdv+k++rlv+pk++ae+h      ++++++++ l led sg++W+++++y+++s++yvltkGW++Fvk+++Lk+gD+v F+++
  Potri.010G129200.1 240 FEKAVTPSDVGKLNRLVIPKQHAEKHfplqstSSNSTKGVLLNLEDVSGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGDIVCFQRS 330
                         89*****************************988889****************************************************87 PP

                         SSSEE..EEE CS
                  B3  86 grsefelvvk 95 
                            + +l++ 
  Potri.010G129200.1 331 TGPDNQLYID 340
                         6566666665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008477.1E-9104152IPR001471AP2/ERF domain
CDDcd000182.95E-26104162No hitNo description
SuperFamilySSF541713.92E-17104160IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.101.7E-20105161IPR001471AP2/ERF domain
PROSITE profilePS5103220.139105160IPR001471AP2/ERF domain
SMARTSM003802.1E-29105166IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.104.4E-42235348IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019366.67E-32238346IPR015300DNA-binding pseudobarrel domain
CDDcd100171.94E-30239339No hitNo description
PfamPF023621.3E-29240341IPR003340B3 DNA binding domain
SMARTSM010195.6E-24240343IPR003340B3 DNA binding domain
PROSITE profilePS5086314.353240344IPR003340B3 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 402 aa     Download sequence    Send to blast
MPLSLVNKNT SSISLSFSFS LAPPSFTTTT RKKNMDGSCI DESTTSSADN SISITPTSLP  60
PFPPTATTTK SPPESLCRVR SGNSSVILDS ESGVEAESRK LPSSKYKGVV PQPNGRWGAQ  120
IYEKHQRVWL GTFNEENEAA RAYDIAAQRF RGRDAVTNFK QVNETEDDEI EAAFLNAHSK  180
AEIVDMLRKH TYSDELEQSK RNHRSNNGGN GKQYKNTANY ENNSYDHGCG RVLKAREQLF  240
EKAVTPSDVG KLNRLVIPKQ HAEKHFPLQS TSSNSTKGVL LNLEDVSGKV WRFRYSYWNS  300
SQSYVLTKGW SRFVKEKNLK AGDIVCFQRS TGPDNQLYID WKARCGSNQV QPVQMVRLFG  360
VNIFNVPGME NGCDGKRSIR DMELLSIDRQ YSKKQRIVGA L*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A2e-5923734811121DNA-binding protein RAV1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pth.121560.0bud
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in leaves. {ECO:0000269|PubMed:18718758}.
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
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.010G129200.1
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002315958.20.0AP2/ERF and B3 domain-containing transcription repressor TEM1
SwissprotQ9C6M51e-154RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLB9HWL70.0B9HWL7_POPTR; Uncharacterized protein
STRINGPOPTR_0010s13930.10.0(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF29203274
Representative plantOGRP36516108
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25560.11e-156RAV 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]