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 Glyma.01G087500.1.p
Common NameGLYMA_01G087500, LOC100776987
Organism
Glycine max
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
Family RAV
Protein Properties Length: 385aa    MW: 41907.1 Da    PI: 9.5993
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.01G087500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP239.11.8e-1275123155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                          s+ykGV   + +grW ++I++      ++r++lg+f  ++eAa+a++ a ++++g
  Glyma.01G087500.1.p  75 SKYKGVVPQP-NGRWGSQIYEK-----HQRVWLGTFNEEDEAARAYDVAVQRFRG 123
                          89****9888.8*********3.....5**********99************998 PP
2B398.25e-31205312196
                          EEEE-..-HHHHTT-EE--HHH.HTT............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT- CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegD 78 
                          f+k+ tpsdv+k++rlv+pk++ae+h                ++++ l +ed  g++W+++++y+++s++yvltkGW++Fvk+++Lk+gD
  Glyma.01G087500.1.p 205 FQKAVTPSDVGKLNRLVIPKQHAEKHfplqsaangvsaTATAAKGVLLNFEDVGGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGD 294
                          99*************************999999877775555699********************************************* PP

                          EEEEEE-SSSEE..EEEE CS
                   B3  79 fvvFkldgrsefelvvkv 96 
                          +v F+++   +++l++ +
  Glyma.01G087500.1.p 295 TVCFQRSTGPDRQLYIDW 312
                          *****8766888777776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000181.29E-2475130No hitNo description
PfamPF008472.0E-775123IPR001471AP2/ERF domain
SuperFamilySSF541711.57E-1675131IPR016177DNA-binding domain
SMARTSM003804.4E-2876137IPR001471AP2/ERF domain
PROSITE profilePS5103219.62576131IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.103.1E-2076131IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.102.4E-39200315IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.62E-29203311IPR015300DNA-binding pseudobarrel domain
CDDcd100171.63E-28204301No hitNo description
PROSITE profilePS5086313.521205316IPR003340B3 DNA binding domain
PfamPF023622.7E-28205313IPR003340B3 DNA binding domain
SMARTSM010194.1E-24205316IPR003340B3 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: 385 aa     Download sequence    Send to blast
MDAISCLDES TTTESLSISQ AKPSSTIMSS EKASPSPPPP NRLCRVGSGA SAVVDSDGGG  60
GGGSTEVESR KLPSSKYKGV VPQPNGRWGS QIYEKHQRVW LGTFNEEDEA ARAYDVAVQR  120
FRGKDAVTNF KPLSGTDDDD GESEFLNSHS KSEIVDMLRK HTYNDELEQS KRSRGFVRRR  180
GSAAGAGNGN SISGACVMKA REQLFQKAVT PSDVGKLNRL VIPKQHAEKH FPLQSAANGV  240
SATATAAKGV LLNFEDVGGK VWRFRYSYWN SSQSYVLTKG WSRFVKEKNL KAGDTVCFQR  300
STGPDRQLYI DWKTRNVVNE VALFGPVVEP IQMVRLFGVN ILKLPGSDSI ANNNNASGCC  360
NGKRREMELF SLECSKKPKI IGAL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A1e-5620231611118DNA-binding protein RAV1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gma.615270.0seed coat
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
PlantRegMapGlyma.01G087500.1.p
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
RefseqNP_001358046.10.0AP2/ERF transcription factor family protein RAV1
RefseqXP_028234147.10.0AP2/ERF and B3 domain-containing transcription repressor TEM1-like
SwissprotQ9C6M51e-151RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A445M0U70.0A0A445M0U7_GLYSO; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLI1J6Q50.0I1J6Q5_SOYBN; RAV1
STRINGGLYMA01G22260.10.0(Glycine max)
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-134RAV 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]