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_Os07g04580.1
Common NameLOC9266125, OJ1417_E01.106, Os07g0138400, OsJ_022124, P0495H05.46
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: 389aa    MW: 40200.9 Da    PI: 7.2175
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os07g04580.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH23.41e-07324347327
                       S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                        +lC+ +++ G C+ G+ C+++Hg+
  LOC_Os07g04580.1 324 IALCSKWRK-GRCHNGAACRYSHGE 347
                       589******.*************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003560.0053321347IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.06E-6321352IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.107.6E-9322352IPR000571Zinc finger, CCCH-type
PfamPF006422.9E-5324347IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.469326348IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010310.117359388IPR000571Zinc finger, CCCH-type
SMARTSM0035618360387IPR000571Zinc 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:0020048anatomymicrospore
PO:0001009developmental stageD pollen mother cell meiosis stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 389 aa     Download sequence    Send to blast
MADPNGRRRL PTGDPDQANA SPSRRVSAVD GVTGGEGRPT YSHFPPGAYE PTDVAYGIRD  60
AANDERARAR ARARHDQGGG AHDHHHDRPR QDQRGEAHLH DLPGEKSEVP DVGPSDQQGK  120
EASDTDMAPL AALAKRSYDV NFPPLHEHRA APFPAPAPAF APAPAGTMGS SSAQVQGDGA  180
PDNHDHDPRH LPRQDQSGGA HPDDLHGEKT IGSGSDILDD SKRGMINAGP QHGRITTSNG  240
GSGSGSDKGK GVSYAGDKPA SSSSSSSSAG QQGSDTDKTP SAAAASSYAV NFPPLLPAPA  300
PVPAPAPAPA VAGAMGVANA HHKIALCSKW RKGRCHNGAA CRYSHGEEEQ RIVPEMRVGG  360
GGRPCPELAA AKGWCRYGLN CKYCHGGV*
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329966420.0
Expression AtlasQ8GW05-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os07g04580.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs07g04580
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0038290.0AP003829.2 Oryza sativa Japonica Group genomic DNA, chromosome 7, BAC clone:OJ1417_E01.
GenBankAP0043140.0AP004314.3 Oryza sativa Japonica Group genomic DNA, chromosome 7, PAC clone:P0495H05.
GenBankAP0149630.0AP014963.1 Oryza sativa Japonica Group DNA, chromosome 7, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015646504.10.0zinc finger CCCH domain-containing protein 47
SwissprotQ8GW050.0C3H47_ORYSJ; Zinc finger CCCH domain-containing protein 47
TrEMBLA2YI040.0A2YI04_ORYSI; Uncharacterized protein
STRINGOS07T0138400-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP166371112
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]