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_Os06g40960.1
Common NameLOC4341518, Os06g0612300, OSNPB_060612300, P0417G12.1, P0429G06.18
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: 446aa    MW: 48430 Da    PI: 7.3574
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os06g40960.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.13.1e-05278297120
                       EEETTTTEEESSHHHHHHHH CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHi 20 
                       ++Cp C k+F+r  n++ H+
  LOC_Os06g40960.1 278 FSCPVCYKTFNRYNNMQMHM 297
                       89*****************9 PP
2zf-C2H213.90.00016362384123
                       EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                       + C +Cgk F  + + ++H +++
  LOC_Os06g40960.1 362 FMCRKCGKAFAVRGDWRTHEKNC 384
                       89*****************9987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576679.52E-5274300No hitNo description
PROSITE profilePS501579.743278305IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.608.1E-6278297IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.45278300IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280280300IPR007087Zinc finger, C2H2
SuperFamilySSF576672.8E-6346382No hitNo description
Gene3DG3DSA:3.30.160.601.3E-5358382IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM0035549362382IPR015880Zinc finger, C2H2-like
PROSITE profilePS501578.808362382IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009860Biological Processpollen tube growth
GO:0010500Biological Processtransmitting tissue development
GO:1990058Biological Processfruit replum development
GO:0005634Cellular Componentnucleus
GO:0016021Cellular Componentintegral component of membrane
GO:0003676Molecular Functionnucleic acid 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: 446 aa     Download sequence    Send to blast
MHTHTQDTTT LPLHLSLFIT VVCLLLHPLC YLLFSFSSYL ELAPYYQSSS MGDPYTNFLR  60
GYHHHHRSHH PLHFPPPPPP PPPPYAASFS GLYSSYLHPP PPPSSPPIRE ALPLLSLTPS  120
TTHDDDHHHR RHDQDHHHHH KQGQEKNSHG GGGAASCSNN DDKRESPSAA AAADDQAAEV  180
TVALHIGLPS PSPSDAAAAA GNQAAAAAAA EASAAGGGSS RMQVEEEGGE EEDEDEAAAA  240
AATATLPLGC ASIGIGKLTK GQYWIPTPSQ ILIGPTQFSC PVCYKTFNRY NNMQMHMWGH  300
GSQYRKGPES LRGTQPTAML RLPCYCCAAG CRNNIDHPRA RPLKDFRTLQ THYKRKHGIK  360
PFMCRKCGKA FAVRGDWRTH EKNCGKLWYC ACGSDFKHKR SLKDHIRAFG RGHAACGIDS  420
FDDLDADDDP SSDLDHASAS ASRVG*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.492700.0flower| panicle
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329811270.0
Expression AtlasQ69WZ1-
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_Os06g40960.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs06g40960
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0711040.0AK071104.1 Oryza sativa Japonica Group cDNA clone:J023078D20, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015642156.10.0zinc finger protein WIP2
SwissprotQ9SVY11e-127ZWIP2_ARATH; Zinc finger protein WIP2
TrEMBLA0A0E0Q0380.0A0A0E0Q038_ORYRU; Uncharacterized protein
TrEMBLQ69WZ10.0Q69WZ1_ORYSJ; Os06g0612300 protein
STRINGORUFI06G22350.10.0(Oryza rufipogon)
STRINGOS06T0612300-010.0(Oryza sativa)
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-116C2H2 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]