PlantTFDB
Plant Transcription Factor Database
v4.0
Previous version: v1.0, v2.0, v3.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID LOC_Os01g04800.1
Common NameLOC4325479, Os01g0141000, P0480E02.32
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
Family RAV
Protein Properties Length: 366aa    MW: 39280.4 Da    PI: 10.3208
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os01g04800.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP2422.3e-1367115155
               AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 
                       s+ykGV   + +grW A+I++      r +r++lg+f  +e Aa+a++ a+++++g
  LOC_Os01g04800.1  67 SRYKGVVPQP-NGRWGAQIYE------RhARVWLGTFPDEEAAARAYDVAALRYRG 115
                       78****9888.8*********......44*************************98 PP

2B395.24.5e-30182280186
                       EEEE-..-HHHHTT-EE--HHH.HTT.............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EE CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfv 80 
                       f+k+ tpsdv+k++rlv+pk++ae+h                + +++ l +ed +g++W+++++y+++s++yvltkGW++Fv+++gL++gD++
  LOC_Os01g04800.1 182 FEKAVTPSDVGKLNRLVVPKQHAEKHfplrraassdsasAAATGKGVLLNFEDGEGKVWRFRYSYWNSSQSYVLTKGWSRFVREKGLRAGDTI 274
                       89****************************99998888755566999********************************************** PP

                       EEEE-S CS
                B3  81 vFkldg 86 
                       vF+++ 
  LOC_Os01g04800.1 275 VFSRSA 280
                       **9664 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008471.5E-867115IPR001471AP2/ERF domain
SuperFamilySSF541711.63E-1767123IPR016177DNA-binding domain
CDDcd000182.47E-1368123No hitNo description
SMARTSM003809.2E-2468129IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.106.8E-2168123IPR001471AP2/ERF domain
PROSITE profilePS5103222.04968123IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.104.4E-39177297IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.58E-30179291IPR015300DNA-binding pseudobarrel domain
CDDcd100176.49E-28180279No hitNo description
SMARTSM010191.7E-23182294IPR003340B3 DNA binding domain
PfamPF023621.8E-27182280IPR003340B3 DNA binding domain
PROSITE profilePS5086313.902182294IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009009anatomyplant embryo
PO:0001081developmental stagemature plant embryo stage
PO:0007042developmental stagewhole plant fruit formation stage
Sequence ? help Back to Top
Protein Sequence    Length: 366 aa     Download sequence    Send to blast
MGVVSFSSTS SGASTATTES GGAVRMSPEP VVAVAAAAQQ LPVVKGVDSA DEVVTSRPAA  60
AAAQQSSRYK GVVPQPNGRW GAQIYERHAR VWLGTFPDEE AAARAYDVAA LRYRGRDAAT  120
NFPGAAASAA ELAFLAAHSK AEIVDMLRKH TYADELRQGL RRGRGMGARA QPTPSWAREP  180
LFEKAVTPSD VGKLNRLVVP KQHAEKHFPL RRAASSDSAS AAATGKGVLL NFEDGEGKVW  240
RFRYSYWNSS QSYVLTKGWS RFVREKGLRA GDTIVFSRSA YGPDKLLFID CKKNNAAAAT  300
TTCAGDERPT TSGAEPRVVR LFGVDIAGGD CRKRERAVEM GQEVFLLKRQ CVVHQRTPAL  360
GALLL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A1e-4917929211115DNA-binding protein RAV1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.272990.0callus| leaf| panicle| root| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1172271810.0
Expression AtlasQ9AWS0-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os01g04800.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs01g04800
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankCT8288860.0CT828886.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCEA058B11, full insert sequence.
GenBankAP0149570.0AP014957.1 Oryza sativa Japonica Group DNA, chromosome 1, cultivar: Nipponbare, complete sequence.
GenBankAP0029130.0AP002913.1 Oryza sativa Japonica Group genomic DNA, chromosome 1, PAC clone:P0480E02.
GenBankAK0650080.0AK065008.1 Oryza sativa Japonica Group cDNA clone:J013001E21, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015622259.10.0PREDICTED: AP2/ERF and B3 domain-containing protein Os01g0141000
SwissprotQ9AWS00.0Y1410_ORYSJ; AP2/ERF and B3 domain-containing protein Os01g0141000
TrEMBLA0A0E0MR560.0A0A0E0MR56_ORYRU; Uncharacterized protein
STRINGLOC_Os01g04800.10.0(Oryza sativa Japonica Group)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP36516108
MonocotsOGMP45638203
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25560.11e-76RAV family protein