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_Os03g10140.1
Common NameLOC4331949, Os03g0197800, OSNPB_030197800
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: 553aa    MW: 57540 Da    PI: 8.5509
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os03g10140.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.11.6e-056284123
                      EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                      ++C++C+k F r  nL+ H r H
  LOC_Os03g10140.1 62 FVCEICNKGFQRDQNLQLHRRGH 84
                      89*******************88 PP
2zf-C2H213.10.00028138160123
                       EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                       +kC +C+k +  +s+ k H +t+
  LOC_Os03g10140.1 138 WKCDKCSKKYAVQSDWKAHTKTC 160
                       58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576676.38E-76184No hitNo description
Gene3DG3DSA:3.30.160.601.8E-56184IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.9496284IPR007087Zinc finger, C2H2
SMARTSM003550.0176284IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002806484IPR007087Zinc finger, C2H2
SMARTSM00355190103133IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.607.3E-4126159IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576676.38E-7133158No hitNo description
SMARTSM00355140138158IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009937Biological Processregulation of gibberellic acid mediated signaling pathway
GO:0010029Biological Processregulation of seed germination
GO:0010431Biological Processseed maturation
GO:0005634Cellular Componentnucleus
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:0009037anatomylemma
PO:0001047developmental stagelemma development stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 553 aa     Download sequence    Send to blast
MEVETSSGTA ERGAGAGAQQ QPPPQPQPQP PAKKKRALPG MPDPDAEVIA LSPKTLLATN  60
RFVCEICNKG FQRDQNLQLH RRGHNLPWKL RQRSGKEVRK RVYVCPEPTC VHHDPSRALG  120
DLTGIKKHFC RKHGEKKWKC DKCSKKYAVQ SDWKAHTKTC GSREYRCDCG TLFSRRDSFI  180
THRAFCDALA EESAKARAAP PPPADEDGTS ASAGAPPPQA PLPPPAPVPA PAPPPPPAAA  240
PAPAAQPEQR DRDAALDQFA TPAPAPAPPP VTAPPPPPVA APNDCVSSSS SGVAPTSQSL  300
LSSMFAPPSV AQAPQYADPI GVGAGGHQER AVPAKPPALC LAPNASSSLF TAPVPADRQQ  360
FAPPPPPSPS PHMSATALLQ KAAQMGATSS SSSFLRCLGL DMSSSSSAPP SSSGQQQQHH  420
HHHHQETMQV PLPASSLPEW PPRLQPEPSP MLSSGLGLGL PYDATGGPVS LPELMMGQST  480
LFSAKPATLD FLGLGVSPTG ASTSRGFPTF IQPIGGAVSL AGSATVAAET FGAAHGGQAN  540
PWERNPSSSP IL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C9e-36134195364Zinc finger protein JACKDAW
5b3h_F9e-36134195364Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.612970.0callus| flower| leaf| panicle| root| stem| vegetative meristem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO2976004870.0
Expression AtlasQ10QG1-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Strongly up-regulated during seed development. {ECO:0000269|PubMed:21571950}.
UniprotTISSUE SPECIFICITY: At 3 days post anthesis (DPA), expressed in the chalazal endosperm region. By 6 DPA, expressed in the endosperm and embryo. In fully germinated seed, strongest expression in the root tip and not detected in the cotyledons. In 4-days old seedlings, restricted to the vasculature of the cotyledons, the shoot apical meristem region, and the root tip. By 8 days, restricted to newly emerged leaves. {ECO:0000269|PubMed:21571950}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor promoting the transition to germination by regulating light and hormonal signaling during seed maturation (PubMed:21571950). Acts as a positive regulator of phytochrome and/or gibberellin action (PubMed:21571950, PubMed:25035403). {ECO:0000269|PubMed:21571950, ECO:0000269|PubMed:25035403}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00592DAPTransfer from AT5G66730Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os03g10140.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs03g10140
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1156870.0AC115687.1 Genomic sequence for Oryza sativa, Nipponbare strain, clone OSJNBa0091J11, from chromosome 3, complete sequence.
GenBankAC1164260.0AC116426.1 Genomic sequence for Oryza sativa, Nipponbare strain, clone OSJNBb0058P18, from chromosome 3, complete sequence.
GenBankAP0149590.0AP014959.1 Oryza sativa Japonica Group DNA, chromosome 3, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015632656.10.0protein indeterminate-domain 1
SwissprotQ9LVQ71e-136IDD1_ARATH; Zinc finger protein ENHYDROUS
TrEMBLQ10QG10.0Q10QG1_ORYSJ; Os03g0197800 protein
STRINGOS03T0197800-000.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20238320
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G50700.11e-96indeterminate(ID)-domain 2
Publications ? help Back to Top
  1. Fukazawa J, et al.
    DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2920-38
    [PMID:25035403]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]