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 Tp57577_TGAC_v2_mRNA26840
Organism
Trifolium pratense
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Trifolium
Family RAV
Protein Properties Length: 381aa    MW: 41972.4 Da    PI: 9.1664
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp57577_TGAC_v2_mRNA26840genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP245.71.6e-1463111155
                        AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                                s+ykGV   + +grW A+I++      ++r++lg+f t++eAa+a++ a+++++g
  Tp57577_TGAC_v2_mRNA26840  63 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNTEDEAARAYDVAAQRFRG 111
                                89****9888.8*********3.....5**********99************998 PP
2B397.58.7e-31193304196
                                EEEE-..-HHHHTT-EE--HHH.HTT...............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHH CS
                         B3   1 ffkvltpsdvlksgrlvlpkkfaeeh...............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFv 69 
                                f+kv tpsdv+k++rlv+pk++ae+h                    +++ l +ed  g++W+++++y+++s++yvltkGW++Fv
  Tp57577_TGAC_v2_mRNA26840 193 FEKVVTPSDVGKLNRLVIPKQHAEKHfplqkavdcgtdgsaAAAAGKGVLLNFEDVGGKVWRFRYSYWNSSQSYVLTKGWSRFV 276
                                99*************************8888888887766633444999*********************************** PP

                                HHHT--TT-EEEEEE-SS.SEE..EEEE CS
                         B3  70 kangLkegDfvvFkldgr.sefelvvkv 96 
                                k+++Lk+gD+v F+++ +  +++l++ +
  Tp57577_TGAC_v2_mRNA26840 277 KEKNLKAGDTVCFQRSTTgPDKQLFIDW 304
                                **************88776777777665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000181.16E-2763118No hitNo description
SuperFamilySSF541713.79E-1863119IPR016177DNA-binding domain
PfamPF008474.4E-1063111IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.2E-2164119IPR001471AP2/ERF domain
SMARTSM003806.0E-3264125IPR001471AP2/ERF domain
PROSITE profilePS5103220.8564119IPR001471AP2/ERF domain
PRINTSPR003671.4E-56576IPR001471AP2/ERF domain
PRINTSPR003671.4E-585101IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.109.6E-40184308IPR015300DNA-binding pseudobarrel domain
CDDcd100176.63E-28192295No hitNo description
SuperFamilySSF1019361.83E-29192295IPR015300DNA-binding pseudobarrel domain
PfamPF023621.8E-28193304IPR003340B3 DNA binding domain
PROSITE profilePS5086313.281193307IPR003340B3 DNA binding domain
SMARTSM010192.4E-22193308IPR003340B3 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: 381 aa     Download sequence    Send to blast
MDGGSCIDES TTTESLSITI PPMKKLSTPP PNSLCRVGSG ASTVVDSDGS GVGEAESRKL  60
PSSKYKGVVP QPNGRWGAQI YEKHQRVWLG TFNTEDEAAR AYDVAAQRFR GKDAVTNFKP  120
LSNDDNDDME VEFLNSHSKS EIVDMLRKHT YNDELEQSKR SRGFINRRSH GGPNCSNLAS  180
FQSSEKKARE DLFEKVVTPS DVGKLNRLVI PKQHAEKHFP LQKAVDCGTD GSAAAAAGKG  240
VLLNFEDVGG KVWRFRYSYW NSSQSYVLTK GWSRFVKEKN LKAGDTVCFQ RSTTGPDKQL  300
FIDWKARKNV NEVGLFVPVG PVVESVQMVR LFGVNILKLP GSDVNNNGNA IAELCINGKR  360
REMEMFTLDS CKKPKIIGAL *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A3e-5219030711117DNA-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
Cis-element ? help Back to Top
SourceLink
PlantRegMapTp57577_TGAC_v2_mRNA26840
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_004514325.10.0AP2/ERF and B3 domain-containing transcription factor RAV1-like
SwissprotQ9C6M51e-137RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A2K3P3530.0A0A2K3P353_TRIPR; Ap2/erf and B3 domain-containing transcription factor at1g50680-like protein
STRINGXP_004514325.10.0(Cicer arietinum)
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-135RAV 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]