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_Os01g53650.1
Common NameLOC4327885, Os01g0738400, OSJNBb0021A09.32, P0638D12.6
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 C3H
Protein Properties Length: 226aa    MW: 24982.2 Da    PI: 6.4994
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os01g53650.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH185.2e-0687112326
                       S---SGGGGTS..--TTTTT-SS-SS CS
           zf-CCCH   3 telCrffartG..tCkyGdrCkFaHg 26 
                        e+C++f+      C++G+ C+FaHg
  LOC_Os01g53650.1  87 GEPCPDFRVAAraACPRGSGCPFAHG 112
                       5899999999999************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.101.1E-483114IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.03784114IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.1E-4119149IPR000571Zinc 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: 226 aa     Download sequence    Send to blast
MAYETSSDHQ LAAAAEFLAA LQVHLAGAEA SSPTWGGRCA YDEDFMMYEF KVRRCPRSRA  60
HEWTSCPYAH PGEAARRRDP SHVTYTGEPC PDFRVAARAA CPRGSGCPFA HGTFETWLHP  120
SRYRTRPCRS GMLCARPVCF FAHNDKELRI VGDDAAAATP SPRSPFTTSE DSPPPSPMDM  180
KQIVLAMQQM DARKATRSVA PKTDMLQQEL EEDAPELGWV SDLLM*
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329958700.0
Expression AtlasQ94JI5-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os01g53650.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs01g53650
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1106610.0AK110661.1 Oryza sativa Japonica Group cDNA clone:002-169-F02, full insert sequence.
GenBankAP0029720.0AP002972.3 Oryza sativa Japonica Group genomic DNA, chromosome 1, PAC clone:P0638D12.
GenBankAP0032180.0AP003218.6 Oryza sativa Japonica Group genomic DNA, chromosome 1, BAC clone:OSJNBb0021A09.
GenBankAP0149570.0AP014957.1 Oryza sativa Japonica Group DNA, chromosome 1, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015644032.11e-166zinc finger CCCH domain-containing protein 10
SwissprotQ94JI51e-167C3H10_ORYSJ; Zinc finger CCCH domain-containing protein 10
TrEMBLA0A0E0N2681e-165A0A0E0N268_ORYRU; Uncharacterized protein
TrEMBLI1NW191e-165I1NW19_ORYGL; Uncharacterized protein
STRINGORUFI01G33300.11e-166(Oryza rufipogon)
STRINGOS01T0738400-011e-166(Oryza sativa)
STRINGORGLA01G0405900.11e-166(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP112091926
Representative plantOGRP886844
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03790.17e-45C3H 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]