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_Os02g19804.1
Common NameLOC4329092, Os02g0301000, OSJNBa0010K08.8-1
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: 327aa    MW: 35778.5 Da    PI: 7.4305
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os02g19804.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH38.22.4e-12188213126
                       --S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                       y   +C+++ +tG+C yGd+CkF+H+
  LOC_Os02g19804.1 188 YQPDICKDYKETGYCGYGDSCKFMHD 213
                       67789********************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF902291.96E-9186218IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.878187215IPR000571Zinc finger, CCCH-type
SMARTSM003561.1E-7187214IPR000571Zinc finger, CCCH-type
PfamPF006424.4E-10188213IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.6E-12188218IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.30.40.109.2E-14261306IPR013083Zinc finger, RING/FYVE/PHD-type
PfamPF139202.1E-8264305No hitNo description
SuperFamilySSF578501.63E-13264307No hitNo description
CDDcd001621.27E-7265306No hitNo description
PROSITE profilePS5008910.734265303IPR001841Zinc finger, RING-type
SMARTSM001849.1E-5265302IPR001841Zinc finger, RING-type
PROSITE patternPS005180280289IPR017907Zinc finger, RING-type, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0034247Biological ProcesssnoRNA splicing
GO:0045292Biological ProcessmRNA cis splicing, via spliceosome
GO:0005684Cellular ComponentU2-type spliceosomal complex
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009009anatomyplant embryo
PO:0001081developmental stagemature plant embryo stage
PO:0007042developmental stagewhole plant fruit formation stage
Sequence ? help Back to Top
Protein Sequence    Length: 327 aa     Download sequence    Send to blast
MADGGGGGEA GSGGSAPVCS FVRKPPKNIR KRPTAPAGSD DDDEDGSGAI AAARAKKAPS  60
STSKLFFSSA DGSSEPRRFQ YESSRTIQAS TDSRATATLE TETEFDRDAR AIRERQLKQA  120
EESLKKNPSA PASSSGSGSG EVYKGIHGYT DYKAGFRREH TVSSEKAGGS HGPLRASAHI  180
RLSARFDYQP DICKDYKETG YCGYGDSCKF MHDRGDYKSG WQIEKEWEEA EKARKRRIAM  240
GGDGSDYEAG EEDDDDDEEA LPFACYICRE PFVDPVVTKC KHYFCEHCAL KHHSKNKKCF  300
VCNKPTLGIF NAAQEIRKKM AQDKKQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5z56_M1e-6281320100317RING finger protein 113A
5z58_M1e-6281320100317RING finger protein 113A
6ff4_t1e-6281320100317RING finger protein 113A
6ff7_t1e-6281320100317RING finger protein 113A
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.61110.0callus| flower| leaf| panicle| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1166315840.0
Expression AtlasQ6K4V3-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os02g19804.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs02g19804
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankCT8315670.0CT831567.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCSA018I20, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015622931.10.0zinc finger CCCH domain-containing protein 15
SwissprotQ6K4V30.0C3H15_ORYSJ; Zinc finger CCCH domain-containing protein 15
TrEMBLA0A0E0NDG50.0A0A0E0NDG5_ORYRU; Uncharacterized protein
STRINGOS02T0301000-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP80713645
Representative plantOGRP58961720
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G01350.11e-121C3H 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]