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_Os06g32720.1
Common NameOs06g0519400
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: 280aa    MW: 31058.7 Da    PI: 7.18
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os06g32720.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH27.17.2e-0980105126
                       --S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                       ++ + C+++ ++G Ck+G rC ++H+
  LOC_Os06g32720.1  80 PGVPDCSYYVEFGSCKFGMRCLYNHP 105
                       5789*********************8 PP
2zf-CCCH25.62.1e-08125147527
                       --SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   5 lCrffartGtCkyGdrCkFaHgp 27 
                        C +++r+G CkyG +C+F+H+p
  LOC_Os06g32720.1 125 DCLHYLRFGRCKYGMNCRFNHPP 147
                       699******************97 PP
3zf-CCCH36.58.4e-12187212126
                       --S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                       ++t lC++++  G+Ck+G++CkF+H+
  LOC_Os06g32720.1 187 PGTGLCSYYMNRGICKFGSNCKFHHP 212
                       5799*********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003560.001479106IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.8579107IPR000571Zinc finger, CCCH-type
PfamPF006425.5E-681105IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.882120148IPR000571Zinc finger, CCCH-type
SMARTSM003560.0079120147IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.89E-6122150IPR000571Zinc finger, CCCH-type
PfamPF006421.4E-5125147IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.104.1E-4126147IPR000571Zinc finger, CCCH-type
SMARTSM003562.8E-5186213IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.507186214IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.36E-7187213IPR000571Zinc finger, CCCH-type
PfamPF006422.8E-9188212IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.3E-5189211IPR000571Zinc 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:0000032anatomytetrad of microspores
PO:0001029developmental stageE tetrad stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 280 aa     Download sequence    Send to blast
MMQILCECCN SDHRSSSTPM ATTTSSSASD PAAISPTPSQ QHASSTVKTL DDRRPAGTSS  60
SAGETEPKAA VEPQEYPRRP GVPDCSYYVE FGSCKFGMRC LYNHPAKHAG GCDKLEHPQR  120
PGEHDCLHYL RFGRCKYGMN CRFNHPPDRL PQQQVYFPWK ACHCHHSEGK SEAEHVKLNF  180
LGLPLRPGTG LCSYYMNRGI CKFGSNCKFH HPNSGSGHEK WDGSLQTNQI SSGVNIYSVL  240
DHGELNEQPV PSKDDFQVSF VQNIVGFNFY IWCDPELAP*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.493330.0leaf
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO379890760.0
Expression AtlasQ0DBW8-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os06g32720.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs06g32720
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1194530.0AK119453.1 Oryza sativa Japonica Group cDNA clone:001-133-D12, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015641847.10.0zinc finger CCCH domain-containing protein 42 isoform X3
RefseqXP_025882268.10.0zinc finger CCCH domain-containing protein 42 isoform X4
SwissprotQ0DBW80.0C3H42_ORYSJ; Zinc finger CCCH domain-containing protein 42
TrEMBLA0A0E0PYJ30.0A0A0E0PYJ3_ORYRU; Uncharacterized protein
TrEMBLA0A0E0PYJ40.0A0A0E0PYJ4_ORYRU; Uncharacterized protein
STRINGOS06T0519400-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP143301322
Representative plantOGRP12471750
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G18550.16e-31C3H 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]