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_Os01g07930.1
Common NameLOC4327128, Os01g0174600, OSJNBa0089K24.23
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: 29860.9 Da    PI: 8.4806
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os01g07930.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.54.1e-075782126
                      --S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHg 26
                      ykt+ C +f  +G C + d C+FaHg
  LOC_Os01g07930.1 57 YKTRVCETFVTSGRCMFEDGCTFAHG 82
                      9************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.102.1E-145188IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.75E-95588IPR000571Zinc finger, CCCH-type
SMARTSM003560.00165683IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.455684IPR000571Zinc finger, CCCH-type
PfamPF006422.1E-45782IPR000571Zinc finger, CCCH-type
SMARTSM003560.49139166IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010310.709139167IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.100.001142164IPR000571Zinc finger, CCCH-type
SuperFamilySSF902299.29E-5142165IPR000571Zinc 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
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: 280 aa     Download sequence    Send to blast
MAGRGGMVEW EVGRRRDSED VIVLSPGPPA RRRPPPVKAV EPESGGFAYE PPEKLFYKTR  60
VCETFVTSGR CMFEDGCTFA HGDEELRPSL TACAGGWRKP SPSLSAAAPP VAVAPTPPPA  120
QVVHELLARG SGSGGGGHRA ITKVCFEFRD KGICYFGETC AFPHVSAAEI RQGSRLSSMS  180
SSSWEMPARR SVAVTVPRTF VSVPPVAPPP PPPHYRVNNS SSYNAASMAA AAPAASDANL  240
VAQQPPPEQG GRKMTRLEML SLKKMTGIYG DWLEGYEHP*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.748350.0panicle
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329928710.0
Expression AtlasQ5VR07-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os01g07930.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs01g07930
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1076620.0AK107662.1 Oryza sativa Japonica Group cDNA clone:002-131-G11, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015622143.10.0zinc finger CCCH domain-containing protein 1
SwissprotQ5VR070.0C3H1_ORYSJ; Zinc finger CCCH domain-containing protein 1
TrEMBLB8ADI00.0B8ADI0_ORYSI; Uncharacterized protein
STRINGOS01T0174600-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP133642030
Representative plantOGRP10392510
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]