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_Os02g45480.1
Common NameLOC9271844, Os02g0677700
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: 436aa    MW: 46639.8 Da    PI: 7.9913
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os02g45480.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.63.8e-07112133426
                       ---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH   4 elCrffartGtCkyGdrCkFaHg 26 
                       ++Cr+f++ G C+yG++C++ H+
  LOC_Os02g45480.1 112 RPCRYFLA-GDCSYGEKCRYPHS 133
                       79******.***********887 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS501039.8262854IPR000571Zinc finger, CCCH-type
SMARTSM003560.572953IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315108135IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.54E-5109133IPR000571Zinc finger, CCCH-type
SMARTSM003560.0012110134IPR000571Zinc finger, CCCH-type
PfamPF006422.0E-4112133IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.106.6E-5112133IPR000571Zinc finger, CCCH-type
SMARTSM003207.3E-6139178IPR001680WD40 repeat
SuperFamilySSF509788.33E-46141427IPR017986WD40-repeat-containing domain
Gene3DG3DSA:2.130.10.103.3E-46142426IPR015943WD40/YVTN repeat-like-containing domain
PfamPF004001.3E-5143178IPR001680WD40 repeat
PROSITE profilePS5029421.357146395IPR017986WD40-repeat-containing domain
PROSITE profilePS5008214.118146187IPR001680WD40 repeat
PRINTSPR003202.8E-7165179IPR020472G-protein beta WD-40 repeat
PROSITE patternPS006780165179IPR019775WD40 repeat, conserved site
SMARTSM003204.9218255IPR001680WD40 repeat
SMARTSM003200.0035262299IPR001680WD40 repeat
PfamPF004000.07267299IPR001680WD40 repeat
PROSITE profilePS5008211.244269308IPR001680WD40 repeat
PRINTSPR003202.8E-7286300IPR020472G-protein beta WD-40 repeat
PROSITE patternPS006780286300IPR019775WD40 repeat, conserved site
SMARTSM003201.8E-4302339IPR001680WD40 repeat
PfamPF004000.013304338IPR001680WD40 repeat
PRINTSPR003202.8E-7326340IPR020472G-protein beta WD-40 repeat
SMARTSM0032013343386IPR001680WD40 repeat
SMARTSM003209389426IPR001680WD40 repeat
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
GO:0046872Molecular Functionmetal ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000032anatomytetrad of microspores
PO:0001029developmental stageE tetrad stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 436 aa     Download sequence    Send to blast
MDIETDGRFG NKRVHHRLGP ANGAASSSTS GKVCIHWRAG RCNRFPCPYL HSELPEATAK  60
RPSQSGGGGN VWRNPHSGGG GGRGAGGAGG PNKWGRGPGG ADGGPRHKVP DRPCRYFLAG  120
DCSYGEKCRY PHSYSMSDSI TMLTPLQGHE KVVTGIALPA GSDKLYSGSK DGTVRMWDCQ  180
TGQCAGVINM GREIGCMISE GPWLFVGIPD AVKVWNMQTQ AEMNLTGPTG QVYALAVGNE  240
LLFAATQDGR ILAWRFSAAT NGFEPAASLV GHQLAVVSLV VGAMRLYSAS MDKTIRVWDL  300
ATLQCIQTLS DHTGVVMSVL CWDQFLLSCS LDQTIKVWAA TESGSLEVTY THKEEHGALA  360
LSGMPDAQSK PVLLCSLNDN TVRLYDLPSF SDRGRIFSKQ EIRAIQVGPS GLFFTGDGTG  420
ELKVWQWVID GSQTK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6g6m_A2e-221433896323Tako8
6g6n_A2e-221433896323Tako8
6g6n_B2e-221433896323Tako8
6g6n_C2e-221433896323Tako8
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.231230.0callus| flower| leaf| panicle| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329875330.0
Expression AtlasQ0DYP5-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os02g45480.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs02g45480
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1023240.0AK102324.1 Oryza sativa Japonica Group cDNA clone:J033090J15, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015627227.10.0zinc finger CCCH domain-containing protein 17
SwissprotQ0DYP50.0C3H17_ORYSJ; Zinc finger CCCH domain-containing protein 17
TrEMBLB8AGT00.0B8AGT0_ORYSI; Uncharacterized protein
STRINGOPUNC02G25510.20.0(Oryza punctata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20263442
Representative plantOGRP10651624
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G51980.10.0C3H 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. Wang D, et al.
    Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice.
    BMC Genomics, 2008. 9: p. 44
    [PMID:18221561]