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 LOC_Os05g40280.1
Common NameLOC4339125, Os05g0481400, OSJNBa0095J22.6
Organism
Oryza sativa subsp. japonica
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 B3
Protein Properties Length: 280aa    MW: 31650.4 Da    PI: 8.7572
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os05g40280.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B358.31.4e-18139226196
                       EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 
                       f+k++++s+v++  +l lp +f++ h  + +++ +++lede+g +++  +   +++ +  l++GW++F+  ++L++gD++vF+l + ++f  +
  LOC_Os05g40280.1 139 FVKTMVRSHVSSCFWLGLPTRFCKLHL-P-PKEYKMVLEDEEGGEFDSVY--IGNRTG--LSGGWRGFAMHHNLEDGDSLVFELAEPDRF--K 223
                       89*********************8885.3.36679***************..555444..***********************9876777..5 PP

                       EEE CS
                B3  94 vkv 96 
                       + +
  LOC_Os05g40280.1 224 IYI 226
                       555 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.0E-21131228IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.37E-24132228IPR015300DNA-binding pseudobarrel domain
CDDcd100175.56E-27137228No hitNo description
SMARTSM010192.5E-23139230IPR003340B3 DNA binding domain
PROSITE profilePS5086312.464139230IPR003340B3 DNA binding domain
PfamPF023623.6E-17139227IPR003340B3 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
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009049anatomyinflorescence
PO:0001083developmental stageinflorescence development stage
PO:0007006developmental stageIL.00 inflorescence just visible stage
Sequence ? help Back to Top
Protein Sequence    Length: 280 aa     Download sequence    Send to blast
MAAEAGSAAA GAAYEEERRK RVLENLKHLE DLGIKKMSKS LLEAARLQKS TRASPKPRKK  60
FEVGATEVRR SSRARNSVSY KENFDELNSF LCRRRGSRIR STEQGRDYTG RVASYEQQQR  120
AFKKAERLQN SLDPENPSFV KTMVRSHVSS CFWLGLPTRF CKLHLPPKEY KMVLEDEEGG  180
EFDSVYIGNR TGLSGGWRGF AMHHNLEDGD SLVFELAEPD RFKIYIIKAV DEDANESEPA  240
DEEAIGDKDT STEDAAEQDD SPNAEPLKGT KRRKLRGRR*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1266272LKGTKRR
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.876920.0callus| panicle| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329787220.0
Expression AtlasQ5KQI4-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os05g40280.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs05g40280
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0687050.0AK068705.1 Oryza sativa Japonica Group cDNA clone:J013160D16, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015639490.10.0B3 domain-containing protein Os05g0481400 isoform X1
RefseqXP_015639491.10.0B3 domain-containing protein Os05g0481400 isoform X2
SwissprotQ5KQI40.0Y5814_ORYSJ; B3 domain-containing protein Os05g0481400
TrEMBLB9FKT00.0B9FKT0_ORYSJ; Uncharacterized protein
STRINGOS05T0481400-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP113703339
Representative plantOGRP9951658
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G58280.13e-43B3 family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]