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_Os12g18120.1
Common NameLOC4351978, Os12g0278800
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: 530aa    MW: 57306.1 Da    PI: 6.5588
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os12g18120.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH27.26.7e-09109134126
                       --S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                       ++++ C ++ ++G C++G +CkF+H+
  LOC_Os12g18120.1 109 PGEPDCTYYVKFGSCRFGMKCKFNHP 134
                       5789*********************8 PP
2zf-CCCH25.91.8e-08240262325
                       S---SGGGGTS--TTTTT-SS-S CS
           zf-CCCH   3 telCrffartGtCkyGdrCkFaH 25 
                       +e+C++++  G Ck+G  Ck+ H
  LOC_Os12g18120.1 240 QEECKYYSTPGGCKFGKACKYLH 262
                       699******************** PP
3zf-CCCH34.63.3e-11287311226
                       -S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                       ++++C++++rtG Cky  +CkF+H+
  LOC_Os12g18120.1 287 GEKECPYYMRTGSCKYATNCKFHHP 311
                       7899********************9 PP
4zf-CCCH19.81.4e-06434460127
                       --S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                       +++++C++f ++G+Ck+  +Ck++H++
  LOC_Os12g18120.1 434 PGQPECQHFVKSGFCKFRMKCKYHHPR 460
                       5789*********************96 PP
5zf-CCCH23.78.3e-08479504227
                       -S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                       +++ C ++ r+G Ck+G+ C ++H++
  LOC_Os12g18120.1 479 DQPVCTYYGRYGVCKFGPACAYNHPF 504
                       6899********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003560.0013108135IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.258108136IPR000571Zinc finger, CCCH-type
PfamPF006422.4E-6110134IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.103237265IPR000571Zinc finger, CCCH-type
SMARTSM003565.3E-4238264IPR000571Zinc finger, CCCH-type
PfamPF006425.5E-6240262IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.1E-4243263IPR000571Zinc finger, CCCH-type
SMARTSM003561.0E-5285312IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.793285313IPR000571Zinc finger, CCCH-type
PfamPF006425.7E-8287311IPR000571Zinc finger, CCCH-type
SuperFamilySSF902296.15E-6288312IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.4E-4291310IPR000571Zinc finger, CCCH-type
SMARTSM003560.028433460IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.676433461IPR000571Zinc finger, CCCH-type
SMARTSM003560.0081477504IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.732477505IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.49E-5478505IPR000571Zinc finger, CCCH-type
PfamPF006421.5E-5479504IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0046872Molecular Functionmetal ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009049anatomyinflorescence
PO:0001083developmental stageinflorescence development stage
PO:0007006developmental stageIL.00 inflorescence just visible stage
Sequence ? help Back to Top
Protein Sequence    Length: 530 aa     Download sequence    Send to blast
MADADARAPP KSDPGATPIG SISPSSAAPA AGEDEVEVEV EVEEQLAGLA IADQGEELLL  60
PKPTGWEDGP VVVAGDEVSG GEKLPGEVAA AVGVEGAAAD SRPRFPRRPG EPDCTYYVKF  120
GSCRFGMKCK FNHPARKKKS RVKGSNGGSG SGGSNSSSNK ASSPDDEQQA PKEEYGSYVP  180
DISPEVDSLG FADKGSASNL ENFKKYSYEI IDVKKGRVEP KELKVAKEKR KEFISEGSSQ  240
EECKYYSTPG GCKFGKACKY LHRDGKEGKT DAEKVDLNFL GLPLRPGEKE CPYYMRTGSC  300
KYATNCKFHH PDPSNVASKD PQLEHENGDA PQQDVQGSSS QPNASIWPDQ RTVNEHHVPF  360
IAPSPSYSAG MLPPQGMYPP PEWNGYHQVP LNPYYPPGVP FQHFPAAPIN HPMYKAPEIP  420
GHQQVPSEEY PERPGQPECQ HFVKSGFCKF RMKCKYHHPR SPVPPAGALS PLGLPIKPDQ  480
PVCTYYGRYG VCKFGPACAY NHPFNFSPVP AAGPPLLPAQ YPTPGNYTL*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.143120.0callus| flower| leaf| panicle| root| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1154881630.0
Expression AtlasQ2QTY2-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os12g18120.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs12g18120
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1119620.0AK111962.1 Oryza sativa Japonica Group cDNA clone:001-032-B06, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015620302.10.0zinc finger CCCH domain-containing protein 65 isoform X3
SwissprotQ2QTY20.0C3H65_ORYSJ; Zinc finger CCCH domain-containing protein 65
TrEMBLB8BP400.0B8BP40_ORYSI; Uncharacterized protein
STRINGOS12T0278800-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP79283548
Representative plantOGRP1476044
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G48440.12e-58C3H 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]
  2. Rice Chromosomes 11 and 12 Sequencing Consortia
    The sequence of rice chromosomes 11 and 12, rich in disease resistance genes and recent gene duplications.
    BMC Biol., 2005. 3: p. 20
    [PMID:16188032]
  3. Wang D, et al.
    Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice.
    BMC Genomics, 2008. 9: p. 44
    [PMID:18221561]