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_Os06g46890.1
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 C3H
Protein Properties Length: 373aa    MW: 42478.8 Da    PI: 9.6955
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os06g46890.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH22.61.8e-071437126
                      --S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHg 26
                      ykt+lC  +++ G+C++ ++C+FaHg
  LOC_Os06g46890.1 14 YKTKLCALWRQ-GECNR-ASCSFAHG 37
                      9**********.*****.*******9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.105.8E-12844IPR000571Zinc finger, CCCH-type
SMARTSM003560.00231338IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.3241339IPR000571Zinc finger, CCCH-type
PfamPF006422.8E-51437IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 373 aa     Download sequence    Send to blast
MREMMGPPRR GPAYKTKLCA LWRQGECNRA SCSFAHGDAE LRGPPPRSPF PPRGGPGRRD  60
HRPDDFRGRH LRPHRRNSPE RDARDHLFRD HRPRSRDRGS SHSRSPIRKR HRKKLEGGKT  120
NSSESLNSSD NEDRKKDDRF NKADDKHDNE AQLQRIQLDM EALHEEKSSL EVILNGKINE  180
ASKLSSRIAD LESQLNDEKE ACERMASKTK KLIKAHARYV KAQDDLKRSQ ARFERFADLL  240
ASDTLKPCSK DQGSSAAKED PYNAYEMSPS DQRQNHETTR KRSVALSTSE EGRNGKKRRE  300
SYDNRDPMSE KYRPEDALEP FQSSKGTEAK ELLSVKKNLG DGDNNEKGNV VSSANVFTDR  360
YEGGDDDDVL VD*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1279298RKRSVALSTSEEGRNGKKRR
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.147470.0callus| flower| leaf| panicle| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329748340.0
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os06g46890.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs06g46890
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0648160.0AK064816.1 Oryza sativa Japonica Group cDNA clone:J013000E13, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015644053.20.0zinc finger CCCH domain-containing protein 13-like isoform X1
SwissprotQ6H7U21e-108C3H13_ORYSJ; Zinc finger CCCH domain-containing protein 13
TrEMBLA0A0E0HUL50.0A0A0E0HUL5_ORYNI; Uncharacterized protein
STRINGONIVA06G28080.20.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP38822943
Representative plantOGRP51641215
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G21810.16e-18C3H family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]