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_Os02g02424.2
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 C2H2
Protein Properties Length: 262aa    MW: 29981.1 Da    PI: 8.5818
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os02g02424.2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.22.9e-05934123
                      EEET..TTTEEESSHHHHHHHHHH.T CS
           zf-C2H2  1 ykCp..dCgksFsrksnLkrHirt.H 23
                      ++C+   Cg+ Fs k n++rH +  H
  LOC_Os02g02424.2  9 FTCSmdGCGRKFSIKANMQRHVKEiH 34
                      89********************9988 PP
2zf-C2H216.42.5e-054670123
                      EEET..TTTEEESSHHHHHHHHHHT CS
           zf-C2H2  1 ykCp..dCgksFsrksnLkrHirtH 23
                      ++C+   C+k+F+  s +k+H  +H
  LOC_Os02g02424.2 46 FVCKeeGCNKVFKYASKMKKHEESH 70
                      89*******************9988 PP
3zf-C2H218.55.5e-06137161223
                       EET..TTTEEESSHHHHHHHHHH.T CS
           zf-C2H2   2 kCp..dCgksFsrksnLkrHirt.H 23 
                       kC+   C  sFs+ksnL++Hi+  H
  LOC_Os02g02424.2 137 KCSfeGCECSFSNKSNLTKHIKAsH 161
                       688999***************9888 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.606.6E-8736IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.89E-7735No hitNo description
SMARTSM003553.9E-4934IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.154939IPR007087Zinc finger, C2H2
PROSITE patternPS0002801134IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.606.3E-84370IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.00384670IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.7644670IPR007087Zinc finger, C2H2
PROSITE patternPS0002804870IPR007087Zinc finger, C2H2
SMARTSM003555.778103IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028080103IPR007087Zinc finger, C2H2
SMARTSM0035515106127IPR015880Zinc finger, C2H2-like
SuperFamilySSF576678.95E-8119174No hitNo description
PROSITE profilePS5015711.365136166IPR007087Zinc finger, C2H2
SMARTSM003550.002136161IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.0E-5137161IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280138161IPR007087Zinc finger, C2H2
SMARTSM003555.8167193IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280169193IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 262 aa     Download sequence    Send to blast
MLKHQGKLFT CSMDGCGRKF SIKANMQRHV KEIHEDETAT KSNRQFVCKE EGCNKVFKYA  60
SKMKKHEESH VKLDYVEVVC CEPGCMKTFT NVECLRAHNQ ACHQYVQCDI CGEKHLKKNI  120
KRHLRAHEEV PSTERIKCSF EGCECSFSNK SNLTKHIKAS HDQVKPFACR FTGCEKVFPY  180
KHVRDNHEKS SAHVYTQANF TEMDEQLLSC PRGGRKRKAV TVETLTRKRV TMHGDASSLD  240
NGTEYLRWLL SGGDDDSSQT H*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.180860.0callus| flower| leaf| panicle| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329856820.0
Expression AtlasB7EQH7-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Both isoforms 1 and 2 transcripts are expressed in seedlings and both TFIIIA and TFIIIA-C are present at similar ratios in 10-day-old seedlings (at protein level). In correlation with the reorganization of 5S rDNA chromatin to a mature state, full-length isoform 1 protein TFIIIA with transcriptional activity accumulates and permits de novo transcription of 5S rRNA. Isoforms 1 and 2 transcripts accumulate in various tissues of the reproductive phase, including flowers and siliques, but only isoform 2 is present in mature seeds. In flowers, both TFIIIA and TFIIIA-C are present at similar ratios (at protein level). Very low amounts of TFIIIA are found in extracts from fresh siliques compared to TFIIIA-C. The amount of full-length TFIIIA protein progressively increases from fresh siliques to seeds concomitant with lower proportions of the shorter TFIIIA-C protein (at protein level) thus leading to 5S rRNA accumulation in the seed. {ECO:0000269|PubMed:22353599}.
UniprotTISSUE SPECIFICITY: Expressed in seedlings, flowers, siliques and seeds. {ECO:0000269|PubMed:22353599}.
Functional Description ? help Back to Top
Source Description
UniProtEssential protein (PubMed:22353599). Isoform 1 is a transcription activator the binds both 5S rDNA and 5S rRNA and stimulates the transcription of 5S rRNA gene (PubMed:12711688, PubMed:22353599). Isoform 1 regulates 5S rRNA levels during development (PubMed:22353599). {ECO:0000269|PubMed:12711688, ECO:0000269|PubMed:22353599}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os02g02424.2
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs02g02424
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1004730.0AK100473.1 Oryza sativa Japonica Group cDNA clone:J023093M20, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025878919.10.0transcription factor IIIA isoform X3
RefseqXP_025878920.10.0transcription factor IIIA isoform X3
SwissprotQ84MZ42e-76TF3A_ARATH; Transcription factor IIIA
TrEMBLB7EQH70.0B7EQH7_ORYSJ; cDNA clone:J023093M20, full insert sequence
STRINGORGLA02G0010700.10.0(Oryza glaberrima)
STRINGOBART02G01180.20.0(Oryza barthii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.11e-79transcription factor IIIA