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_Os03g13400.1
Common NameLOC9270511, Os03g0237250, OSNPB_030237250
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: 439aa    MW: 45959.7 Da    PI: 10.1244
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os03g13400.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H221.27.4e-0779101123
                       EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                       y+C++Cg+ F r  nL+ H r+H
  LOC_Os03g13400.1  79 YVCEICGQGFQREQNLQMHRRRH 101
                       9*********************9 PP
2zf-C2H210.70.0016179201123
                       EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                       ++C  C k +  +s++k H++t+
  LOC_Os03g13400.1 179 WVCARCAKGYAVQSDYKAHLKTC 201
                       58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.601.4E-578101IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.38E-778101No hitNo description
SMARTSM003556.5E-479101IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.75979101IPR007087Zinc finger, C2H2
PROSITE patternPS00028081101IPR007087Zinc finger, C2H2
SMARTSM00355110143173IPR015880Zinc finger, C2H2-like
SuperFamilySSF576673.38E-7174199No hitNo description
SMARTSM00355270179206IPR015880Zinc finger, C2H2-like
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: 439 aa     Download sequence    Send to blast
MALVKSHHQM LASSSTSSSS PSSQQQQPPP PASNSSSLAA AAADQPSPAK RKRRPPGTPD  60
PDAEVVALSP RTLLESDRYV CEICGQGFQR EQNLQMHRRR HKVPWRLVKR PAAATAAEDG  120
GAAGGGGGAG GGAGGGGARK RVFVCPEPSC LHHDPAHALG DLVGIKKHFR RKHGGRRQWV  180
CARCAKGYAV QSDYKAHLKT CGTRGHSCDC GRVFSRVESF IEHQDACNSG RVRGEVVPVA  240
TTLPVIRPAA LRHHHHHPPP PPPELQLLPA STTAPLAAAF SSNSTTTGSS SHEQHATTMT  300
TTKLQLSIGP AAVVAAASGG GGACAAAAGG EEEQQREEVR RALEEKTAAD AARERAREEA  360
AAAERALEDA RRARHRARGE LEKALALRDH AARLIAQVTC HACRQRSLAV MSMAAIDGHG  420
ASAVAREHLR GGGVGAGI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-16175229357Zinc finger protein JACKDAW
5b3h_F1e-16175229357Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.800980.0panicle
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1166313430.0
Expression AtlasA0A0P0VV73-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in cotyledons and the vasculature of reosette leaves. Weak expression in hypocotyls and floral organs, but not detected in roots and inflorescence stems. {ECO:0000269|PubMed:24039602}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor regulating starch metabolism by binding directly to the promoter of QQS (PubMed:21556057). The IDD14beta isoform attenuates the transcription factor activity by competitively forming heterodimers with reduced DNA-binding capacity(PubMed:21556057). Regulates lateral organ morphogenesis and gravitropic responses (PubMed:24039602). Has a redundant role with IDD16 in directing leaf and floral organ morphogenesis (PubMed:24039602). Involved in the establishment of auxin gradients through the regulation of auxin biosynthesis and transport (PubMed:24039602). {ECO:0000269|PubMed:21556057, ECO:0000269|PubMed:24039602}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os03g13400.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not regulated by auxin. {ECO:0000269|PubMed:24039602}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs03g13400
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankCT8376980.0CT837698.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCEA005P05, full insert sequence.
GenBankJQ6815280.0JQ681528.1 Oryza sativa Indica Group cultivar Zhongxian3037 LPA1 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015629419.10.0protein indeterminate-domain 16
SwissprotQ9C9X71e-105IDD14_ARATH; Protein indeterminate-domain 14
TrEMBLA0A0P0VV730.0A0A0P0VV73_ORYSJ; Os03g0237250 protein
STRINGOS03T0237250-000.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP105138124
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G01940.19e-88C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Arendsee ZW,Li L,Wurtele ES
    Coming of age: orphan genes in plants.
    Trends Plant Sci., 2014. 19(11): p. 698-708
    [PMID:25151064]
  2. Qu Y, et al.
    Peroxisomal CuAOζ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis.
    J. Exp. Bot., 2017. 68(17): p. 4851-4867
    [PMID:28992128]