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_Os12g39400.1
Common NameLOC4352653, Os12g0583700, OSNPB_120583700
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: 248aa    MW: 24946 Da    PI: 7.8031
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os12g39400.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H211.90.000791113123
                       EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                       ++C+ Cgk F +   L  H  +H
  LOC_Os12g39400.1  91 HRCSVCGKAFASYQALGGHKASH 113
                       79**********99998888877 PP
2zf-C2H2110.0014155174120
                       EEETTTTEEESSHHHHHHHH CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHi 20 
                       ++C+ Cgk F++   L  H 
  LOC_Os12g39400.1 155 HECNVCGKAFPTGQALGGHK 174
                       78*********988886665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF139125.6E-1391115IPR007087Zinc finger, C2H2
PROSITE profilePS5015711.36591118IPR007087Zinc finger, C2H2
SMARTSM003550.02391113IPR015880Zinc finger, C2H2-like
SuperFamilySSF576674.54E-1091113No hitNo description
PROSITE patternPS00028093113IPR007087Zinc finger, C2H2
SuperFamilySSF576674.54E-10150177No hitNo description
PfamPF139122.5E-13154179IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.606.5E-5155177IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.388155177IPR007087Zinc finger, C2H2
SMARTSM003550.063155177IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280157177IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006979Biological Processresponse to oxidative stress
GO:0009409Biological Processresponse to cold
GO:0009414Biological Processresponse to water deprivation
GO:0009611Biological Processresponse to wounding
GO:0009644Biological Processresponse to high light intensity
GO:0009651Biological Processresponse to salt stress
GO:0009737Biological Processresponse to abscisic acid
GO:0010117Biological Processphotoprotection
GO:0010200Biological Processresponse to chitin
GO:0015979Biological Processphotosynthesis
GO:0035264Biological Processmulticellular organism growth
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA 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: 248 aa     Download sequence    Send to blast
MAVEAVLEAS RSSSEEEAEV IVTHGGGGGG GGGGGQVEGW GKRKRSRRRR PQLPPSEEEY  60
LALCLLMLAR GRRDGDDVAA SASAAAAAVE HRCSVCGKAF ASYQALGGHK ASHRKPPPPA  120
MVDDDEVVVE TKPAAIATPS SSASGVSGGG GGRAHECNVC GKAFPTGQAL GGHKRCHYDG  180
TIGSAAGAGA SKPAAKTTVA VAASRGFDLN LPALPDVAAA ADQRCAAEDD EVLSPLAFKK  240
PRLMIPA*
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasQ2QN06
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During germination, abundant up to fourteen hours after imbibition. Levels decrease slightly after this and then gradually increase again. {ECO:0000269|PubMed:8223628}.
UniprotTISSUE SPECIFICITY: Highest levels in the root apex of wheat seedlings, lowest levels in leaf proximal region. {ECO:0000269|PubMed:8223628}.
Functional Description ? help Back to Top
Source Description
UniProtPotential transcription factor which binds the nonamer motif 5'-CATCCAACG-3'. Possibly involved in regulating transcription of the histone H3 and H4 genes. {ECO:0000269|PubMed:8223628}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00162DAPTransfer from AT1G27730Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os12g39400.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs12g39400
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2889630.0AK288963.1 Oryza sativa Japonica Group cDNA, clone: J090084H09, full insert sequence.
GenBankAL7724270.0AL772427.4 Oryza sativa chromosome 12, . BAC OJ1260_B01 of library Monsanto from chromosome 12 of cultivar Nipponbare of ssp. japonica of Oryza sativa (rice), complete sequence.
GenBankAP0149680.0AP014968.1 Oryza sativa Japonica Group DNA, chromosome 12, cultivar: Nipponbare, complete sequence.
GenBankCT8416080.0CT841608.1 Oryza rufipogon (W1943) cDNA clone: ORW1943C105H24, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015620192.11e-176zinc finger protein 1
SwissprotQ424309e-46ZFP1_WHEAT; Zinc finger protein 1
TrEMBLQ2QN061e-174Q2QN06_ORYSJ; Os12g0583700 protein
STRINGOS12T0583700-001e-175(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP102236113
Representative plantOGRP13115149
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G49930.12e-28C2H2 family protein
Publications ? help Back to Top
  1. Rice Chromosomes 11 and 12 Sequencing Consortia
    The sequence of rice chromosomes 11 and 12, rich in disease resistance genes and recent gene duplications.
    BMC Biol., 2005. 3: p. 20
    [PMID:16188032]
  2. Xu DQ, et al.
    Overexpression of a TFIIIA-type zinc finger protein gene ZFP252 enhances drought and salt tolerance in rice (Oryza sativa L.).
    FEBS Lett., 2008. 582(7): p. 1037-43
    [PMID:18325341]