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_Os05g45020.1
Common NameLOC4339379, OJ1593_C11.10, Os05g0525900
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: 256aa    MW: 28257.9 Da    PI: 5.2517
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os05g45020.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH23.59.5e-08101126326
                       S---SGGGGTS...--TTTTT-SS-SS CS
           zf-CCCH   3 telCrffartG...tCkyGdrCkFaHg 26 
                        e+C++f+r      C++G++C+FaHg
  LOC_Os05g45020.1 101 GEPCPDFRR-RpgaACPRGSTCPFAHG 126
                       689****99.558*************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010314.32498128IPR000571Zinc finger, CCCH-type
SMARTSM003560.04198127IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.107.3E-699130IPR000571Zinc finger, CCCH-type
PfamPF006421.0E-5102126IPR000571Zinc finger, CCCH-type
SMARTSM0035628136159IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0046872Molecular Functionmetal ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009089anatomyendosperm
PO:0007042developmental stagewhole plant fruit formation stage
PO:0007633developmental stageendosperm development stage
Sequence ? help Back to Top
Protein Sequence    Length: 256 aa     Download sequence    Send to blast
MASREHLLLD PAALAVSWAD PAAVEIPPEL LAALGEYLSA RRSDGEAEAD AEAEADDEFM  60
MYEFKVRRCA RARSHDWTAC PYAHPGEAAR RRDPRRVAYT GEPCPDFRRR PGAACPRGST  120
CPFAHGTFEL WLHPSRYRTR PCRAGVACRR RVCFFAHTAG ELRAGSKEDS PLSLSPKSTL  180
ASLWESPPVS PVEGRRWVDG IDECDADAEM EELMFAMREL GLRKVRPSAS SVTPVLPPVT  240
DEDGPDFGWV SELVM*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.877190.0callus| leaf| panicle| root| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329934580.0
Expression AtlasQ65X92-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os05g45020.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs05g45020
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1095960.0AC109596.3 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1593_C11, complete sequence.
GenBankAK1082490.0AK108249.1 Oryza sativa Japonica Group cDNA clone:002-140-H10, full insert sequence.
GenBankAP0149610.0AP014961.1 Oryza sativa Japonica Group DNA, chromosome 5, cultivar: Nipponbare, complete sequence.
GenBankCP0126130.0CP012613.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 5 sequence.
GenBankEU8475210.0EU847521.1 Oryza sativa Japonica Group clone OsLS333 zinc finger protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015637897.10.0zinc finger CCCH domain-containing protein 37
SwissprotQ65X920.0C3H37_ORYSJ; Zinc finger CCCH domain-containing protein 37
TrEMBLA0A0E0PQ670.0A0A0E0PQ67_ORYRU; Uncharacterized protein
TrEMBLA2Y6P70.0A2Y6P7_ORYSI; Uncharacterized protein
TrEMBLB7F1470.0B7F147_ORYSJ; Zinc finger protein
TrEMBLI1PXG10.0I1PXG1_ORYGL; Uncharacterized protein
STRINGORUFI05G24800.10.0(Oryza rufipogon)
STRINGOS05T0525900-010.0(Oryza sativa)
STRINGORGLA05G0205900.10.0(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP112091926
Representative plantOGRP1286422
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03790.11e-40C3H 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]
  3. Wang D, et al.
    Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice.
    BMC Genomics, 2008. 9: p. 44
    [PMID:18221561]