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_Os01g45730.1
Common NameLOC4325916, Os01g0645000, OsJ_002707
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 C3H
Protein Properties Length: 334aa    MW: 36086.5 Da    PI: 7.9986
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os01g45730.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH48.21.7e-15259284126
                       --S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                       +ktelC+ + +tG C+yGd+C+FaHg
  LOC_Os01g45730.1 259 FKTELCNKWEETGDCPYGDQCQFAHG 284
                       79***********************9 PP
2zf-CCCH18.92.8e-06297322126
                       --S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                       ykt+ Cr  +++  C+yG rC+F H+
  LOC_Os01g45730.1 297 YKTAVCRMVLAGDVCPYGHRCHFRHS 322
                       9**********55**********998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.101.5E-18253291IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.83E-10255290IPR000571Zinc finger, CCCH-type
SMARTSM003562.5E-9258285IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.497258286IPR000571Zinc finger, CCCH-type
PfamPF006422.0E-12259284IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.71E-8292324IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.2E-11292322IPR000571Zinc finger, CCCH-type
SMARTSM003569.5E-5296323IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.009296324IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0061158Biological Process3'-UTR-mediated mRNA destabilization
GO:0005829Cellular Componentcytosol
GO:0003677Molecular FunctionDNA binding
GO:0003730Molecular FunctionmRNA 3'-UTR binding
GO:0046872Molecular Functionmetal ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009047anatomystem
PO:0007010developmental stagewhole plant fruit ripening stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 334 aa     Download sequence    Send to blast
MQEALVSPVR SALELKPFNF GDQRLASSPR YLPSGDDALY RCSSPFSPSF GFSSPSPLAT  60
SVSLSPSSSA SLVDDGDDGG AAADATGQRL QLARLALQYQ EVADRYELCL SHLAEAAEEA  120
AALRLENAEL RVTNSDLALR LALLSGKHTA AVAVADEIRR LRLGEQKVAA ATKERTPEKL  180
AVLPKSISVR STSYLKLNQQ SQAATATSAA PNRKPRTSSN PTNPPNSQRA YDGGKKGDEQ  240
KAQPADSGAE LEVYNQGMFK TELCNKWEET GDCPYGDQCQ FAHGVTELRP VIRHPRYKTA  300
VCRMVLAGDV CPYGHRCHFR HSLTPAERLL LRS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1rgo_A4e-22259322467Butyrate response factor 2
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.305670.0vegetative meristem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329938670.0
Expression AtlasA2ZVY5-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os01g45730.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs01g45730
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1086580.0AK108658.1 Oryza sativa Japonica Group cDNA clone:002-148-E11, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015631641.10.0zinc finger CCCH domain-containing protein 9 isoform X1
SwissprotA2ZVY50.0C3H9_ORYSJ; Zinc finger CCCH domain-containing protein 9
TrEMBLA0A0E0MZY20.0A0A0E0MZY2_ORYRU; Uncharacterized protein
TrEMBLA2WT580.0A2WT58_ORYSI; Uncharacterized protein
STRINGORUFI01G27340.10.0(Oryza rufipogon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP27753784
Representative plantOGRP20581636
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G68200.14e-50C3H family protein
Publications ? help Back to Top
  1. Wang D, et al.
    Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice.
    BMC Genomics, 2008. 9: p. 44
    [PMID:18221561]