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_Os09g31140.1
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: 289aa    MW: 30693.3 Da    PI: 7.2659
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os09g31140.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.52.4e-05119138120
                       EEETTTTEEESSHHHHHHHH CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHi 20 
                       ++Cp C k+F+r  n++ H+
  LOC_Os09g31140.1 119 FSCPVCFKTFNRYNNMQMHM 138
                       89*****************9 PP
2zf-C2H213.20.00027205225323
                       ETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   3 CpdCgksFsrksnLkrHirtH 23 
                       C +Cgk F  k + ++H +++
  LOC_Os09g31140.1 205 CRKCGKAFAVKGDWRTHEKNC 225
                       *****************9987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576677.83E-5115141No hitNo description
Gene3DG3DSA:3.30.160.603.9E-6119138IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.64119146IPR007087Zinc finger, C2H2
SMARTSM003550.38119141IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280121141IPR007087Zinc finger, C2H2
SuperFamilySSF576671.49E-6185223No hitNo description
Gene3DG3DSA:3.30.160.602.1E-5189223IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM0035582203223IPR015880Zinc finger, C2H2-like
PROSITE profilePS501578.621203223IPR007087Zinc finger, C2H2
SMARTSM00355220229252IPR015880Zinc 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: 289 aa     Download sequence    Send to blast
MDVEGSGSGC CAAEAAAAGD DDADVTVALH IGLPSPTAAA DLISGLSSAA GRRSSTARRD  60
EEEDEAEEAG GASRDDGDGG DAADAAAPLG FASTPIGRLN KGQYWIPTPS QILIGPTQFS  120
CPVCFKTFNR YNNMQMHMWG HGSQYRKGPE SLRGIQPTAM LRLPCYCCAA GCRNNIDHPR  180
AKPLKDFRTL QTHYKRKHGL KPFLCRKCGK AFAVKGDWRT HEKNCGKLWY CLCGSEFKHK  240
RSLKDHARAF GHGHGALGGA AALDDDDDGA VSDLDHDSSS TAPAARSL*
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO379893990.0
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in developing carpels (PubMed:17600712). Expressed in the shoot apical meristem and the replum (PubMed:25039392). {ECO:0000269|PubMed:17600712}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional regulator required for normal differentiation of the ovary transmitting tract cells and pollen tube growth. In Arabidopsis, the transmitting tract facilitates the transport of pollen tubes to the ovules for fertilization (PubMed:17600712). May play a role in the regulation of AGL8/FUL, which is required for normal pattern of cell division, expansion and differentiation during morphogenesis of the silique (PubMed:23515580). Plays a role in replum development by the activation of the homeobox protein KNAT1 (PubMed:25039392). {ECO:0000269|PubMed:17600712, ECO:0000269|PubMed:23515580, ECO:0000269|PubMed:25039392}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os09g31140.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs09g31140
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEF6269400.0EF626940.1 Oryza sativa (indica cultivar-group) WIP4 (WIP4) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015611033.10.0zinc finger protein WIP2
SwissprotQ9SVY11e-125ZWIP2_ARATH; Zinc finger protein WIP2
TrEMBLA0A0E0ILH20.0A0A0E0ILH2_ORYNI; Uncharacterized protein
TrEMBLA2Z2J00.0A2Z2J0_ORYSI; Uncharacterized protein
TrEMBLA6N8R90.0A6N8R9_ORYSI; WIP4
STRINGONIVA09G15100.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP58638170
Representative plantOGRP4101597
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G57670.11e-108C2H2 family protein
Publications ? help Back to Top
  1. Crawford BC, et al.
    Plant development. Genetic control of distal stem cell fate within root and embryonic meristems.
    Science, 2015. 347(6222): p. 655-9
    [PMID:25612610]
  2. Boex-Fontvieille E, et al.
    An Ethylene-Protected Achilles' Heel of Etiolated Seedlings for Arthropod Deterrence.
    Front Plant Sci, 2016. 7: p. 1246
    [PMID:27625656]