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_Os09g13530.1
Common NameLOC107275553, Os09g0305900, OSJNBa0064I23.11
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: 253aa    MW: 26161.1 Da    PI: 7.5444
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os09g13530.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH25.81.9e-083761227
                      -S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHgp 27
                      k +lC+ +++ G C+ G  C++aHg+
  LOC_Os09g13530.1 37 KSVLCMKWRE-GRCHNGVACRYAHGE 61
                      678*******.*************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF902298.32E-73366IPR000571Zinc finger, CCCH-type
SMARTSM003560.00113561IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.2E-93566IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.2063562IPR000571Zinc finger, CCCH-type
PfamPF006423.4E-63761IPR000571Zinc 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
Sequence ? help Back to Top
Protein Sequence    Length: 253 aa     Download sequence    Send to blast
MDSAAAERPS SYAVNFPPLL PAPAPAVAGA MGVANHKSVL CMKWREGRCH NGVACRYAHG  60
EEDQRIVPEM RVGGGGTSMH ARSSPPRDGA SSGSTASIAM AACRIEEQRH GRGGESFILP  120
RSRRKRQALG SGSARSTAPT PPRAHTTPPC SRSVAAPRAS TSPLRPSPVP PPATLHSAAD  180
VQRSVARALE DFEQRESSSS VFPLAIDIVA EDAMTATSEP SATSDDDAIT TTTSSSTTDA  240
DELDAAVAAP PK*
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329966421e-102
Expression AtlasQ69KP0-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os09g13530.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs09g13530
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0059120.0AP005912.3 Oryza sativa Japonica Group genomic DNA, chromosome 9, BAC clone:OSJNBa0064I23.
GenBankAP0149650.0AP014965.1 Oryza sativa Japonica Group DNA, chromosome 9, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015611102.11e-180putative zinc finger CCCH domain-containing protein 58
SwissprotQ69KP00.0C3H58_ORYSJ; Putative zinc finger CCCH domain-containing protein 58
TrEMBLB9G2R61e-153B9G2R6_ORYSJ; Uncharacterized protein
STRINGOS09T0305900-001e-179(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP3154444
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]