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_Os03g05690.1
Common NameLOC9268736, Os03g0151300, SE14
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: 667aa    MW: 73100.5 Da    PI: 5.9595
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os03g05690.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.11.5e-05556581123
                       EEET..TTTEEESSHHHHHHHHHH.T CS
           zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                       ++C    C+++F +k +L+ H+r+ +
  LOC_Os03g05690.1 556 FQCDieFCDMTFETKAELRAHQRNiC 581
                       899999*****************877 PP
2zf-C2H213.80.00017581603323
                       ET..TTTEEESSHHHHHHHHHHT CS
           zf-C2H2   3 Cp..dCgksFsrksnLkrHirtH 23 
                       C+   Cgk+Fs++ +LkrH+ +H
  LOC_Os03g05690.1 581 CTdeSCGKRFSSHKYLKRHQCVH 603
                       77778***************998 PP
3zf-C2H214.97.6e-05639665123
                       EEET..TTTEEESSHHHHHHHHHH..T CS
           zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt..H 23 
                       ykC+  dCg+sF+  s++ rH ++  H
  LOC_Os03g05690.1 639 YKCSapDCGQSFRYVSDYSRHRKKfnH 665
                       99********************98666 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.608.5E-5550578IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM0035512556578IPR015880Zinc finger, C2H2-like
PROSITE profilePS501578.538556578IPR007087Zinc finger, C2H2
SMARTSM003552.3579603IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015713.006579608IPR007087Zinc finger, C2H2
SuperFamilySSF576675.69E-7581615No hitNo description
PROSITE patternPS000280581603IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.8E-7585609IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576675.85E-11607661No hitNo description
SMARTSM003556.6E-4609633IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.967609638IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.4E-11610633IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280611633IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.605.7E-11634661IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.14639665IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.365639666IPR007087Zinc finger, C2H2
PROSITE patternPS000280641665IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009908Biological Processflower development
GO:0016577Biological Processhistone demethylation
GO:0045814Biological Processnegative regulation of gene expression, epigenetic
GO:0048579Biological Processnegative regulation of long-day photoperiodism, flowering
GO:0055114Biological Processoxidation-reduction process
GO:0005634Cellular Componentnucleus
GO:0003676Molecular Functionnucleic acid binding
GO:0032452Molecular Functionhistone demethylase activity
GO:0046872Molecular Functionmetal ion binding
GO:0051213Molecular Functiondioxygenase activity
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009009anatomyplant embryo
PO:0001081developmental stagemature plant embryo stage
PO:0007042developmental stagewhole plant fruit formation stage
Sequence ? help Back to Top
Protein Sequence    Length: 667 aa     Download sequence    Send to blast
MGLNLKHSSK IRKETPESQE QPPLSFWGLF SKPSPISVVS NLKWLCRKAR TPYKVIGYAS  60
SPDVVATPDK VKPAVTKTQI DTSGNAHENI GSEQTLQQDC VLQESNDVAD MCKRPKVNDQ  120
DGHSLINIPI AVAEYPMMHQ VCERPVSVSA CDDPICSFDS QDSPTTVAVS AGKPTREQCG  180
AESTELSTVK QFLDNGLIAE GGSMNFISNH EHLESDNATS VCKDEQLQVQ QDQLAMVLCN  240
NPNTELVAGE LHGGAASSTL ENEDSCGNTS YCSDTVLKNS EPDTDDQPET CDRSVVLVTP  300
KSSCDQMISS SDRSCSLTLD CPVSTDAAFS SEKLSMAHDL MGSELQAVHN SKAEVVASLT  360
DVKGAKLNSI HTTQLPHESP SSDFIISEGA QSASTTAIPR KNGTSMHTES NSIDILLGVL  420
ADESKVSSGK DEVGKASLTL MTLAGNDQSA DDVTQDEVAE ITDPSHGFCS SDIVSRSIGS  480
SNRTNIICYA RRKHKRKSGS EFNINSPQSL GSFVRSPCES LRPRTRPAIV EDMTNETKTA  540
EASTANKRKK AKVEAFQCDI EFCDMTFETK AELRAHQRNI CTDESCGKRF SSHKYLKRHQ  600
CVHRDERPFK CPWDGCPMTF KWLWAQTEHI RVHTGERPYK CSAPDCGQSF RYVSDYSRHR  660
KKFNHY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6a57_A2e-4755566522132Lysine-specific demethylase REF6
6a58_A2e-4755566522132Lysine-specific demethylase REF6
6a59_A2e-4755566522132Lysine-specific demethylase REF6
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1490496RRKHKRK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.560540.0callus| flower| leaf| panicle| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329960160.0
Expression AtlasQ10RP4-
Functional Description ? help Back to Top
Source Description
UniProtHistone demethylase that demethylates 'Lys-4' (H3K4me) of histone H3. Involved in the control of flowering time. Has a suppressive effect on floral transition under long day conditions through the demethylation of H3K4me3 in the promoter region of the flower-promoting signal HD3B/RFT1. {ECO:0000269|PubMed:24759811}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os03g05690.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Disruption Phenotype ? help Back to Top
Source Description
UniProtDISRUPTION PHENOTYPE: Early flowering. {ECO:0000269|PubMed:24759811}.
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs03g05690
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1376350.0AC137635.2 Genomic sequence for Oryza sativa, Nipponbare strain, clone OSJNBa0038D20, 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_015630480.10.0lysine-specific demethylase SE14-like isoform X1
SwissprotQ10RP40.0SE14_ORYSJ; Lysine-specific demethylase SE14
TrEMBLA0A0E0GGW90.0A0A0E0GGW9_ORYNI; Uncharacterized protein
STRINGONIVA03G03740.20.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP99393437
Representative plantOGRP75061114
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G04240.12e-54C2H2 family protein
Publications ? help Back to Top
  1. Yokoo T, et al.
    Se14, encoding a JmjC domain-containing protein, plays key roles in long-day suppression of rice flowering through the demethylation of H3K4me3 of RFT1.
    PLoS ONE, 2014. 9(4): p. e96064
    [PMID:24759811]