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_Os12g21700.1
Common NameLOC4352041, Os12g0405100, OsJ_35844
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: 455aa    MW: 48663.5 Da    PI: 8.2342
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os12g21700.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH34.43.8e-116993327
                      S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH  3 telCrffartGtCkyGdrCkFaHgp 27
                      ++ C++++rtG C++G +CkF+H+p
  LOC_Os12g21700.1 69 EPDCSYYMRTGLCRFGMTCKFNHPP 93
                      789********************97 PP
2zf-CCCH38.81.6e-12114138327
                       S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                       +++C+++++tGtCk+G++CkF+H++
  LOC_Os12g21700.1 114 QPECQYYLKTGTCKFGATCKFHHPR 138
                       799********************96 PP
3zf-CCCH314.3e-10160184327
                       S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                       +++C +++rtG+Ck+ ++CkF+H++
  LOC_Os12g21700.1 160 EKECAYYLRTGQCKFASTCKFHHPQ 184
                       679********************97 PP
4zf-CCCH39.59.4e-13320345227
                       -S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                       ++++C+f+++tG Ck+G+ CkF+H++
  LOC_Os12g21700.1 320 DQPECQFYMKTGDCKFGAVCKFHHPK 345
                       689*********************96 PP
5zf-CCCH37.54e-12365391127
                       --S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                       ++++ C f++r+G+Ck+G++CkF H++
  LOC_Os12g21700.1 365 PGEPVCTFYSRYGICKFGPNCKFDHPM 391
                       5789*********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003564.8E-56693IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.2816694IPR000571Zinc finger, CCCH-type
PfamPF006421.3E-86993IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.75E-57094IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.108.8E-47292IPR000571Zinc finger, CCCH-type
SMARTSM003567.7E-6111138IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.441111139IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.7E-6113140IPR000571Zinc finger, CCCH-type
PfamPF006426.5E-10114138IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.104.3E-5117139IPR000571Zinc finger, CCCH-type
SuperFamilySSF902296.15E-6156185IPR000571Zinc finger, CCCH-type
SMARTSM003564.9E-4157184IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.324157185IPR000571Zinc finger, CCCH-type
PfamPF006423.3E-7160184IPR000571Zinc finger, CCCH-type
SMARTSM003564.7E-5318345IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.511318346IPR000571Zinc finger, CCCH-type
PfamPF006422.4E-9320345IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.1E-5321348IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.109.1E-5324346IPR000571Zinc finger, CCCH-type
SMARTSM003561.8E-7364391IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.99364392IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-9366391IPR000571Zinc finger, CCCH-type
SuperFamilySSF902296.54E-6368393IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.9E-4369389IPR000571Zinc 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:0025281anatomypollen
PO:0001015developmental stageK second mitotic division stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 455 aa     Download sequence    Send to blast
MAAGAGAGGG GGEGDSNGGG TSPGGVSAAA PAIGPHHLGV AAAEEAMWQM TLGGGESMES  60
TPYPERIGEP DCSYYMRTGL CRFGMTCKFN HPPNRKLAVA AARMNGEYPY RVGQPECQYY  120
LKTGTCKFGA TCKFHHPREK AALANRVQLN VLGYPMRPNE KECAYYLRTG QCKFASTCKF  180
HHPQPSNTMV AVRNSMYSPG QSATSPGQHT YPGAVTNWTL SRSASFIASP RWPGHSGYAQ  240
VIVPQGLVQV PGWNPYAAQM GSSSPDDQQR TPVTTQYYGS RQSETGGMGD HGMYQSYQGG  300
SVPVGVYTVQ GENIFPERPD QPECQFYMKT GDCKFGAVCK FHHPKERLVP APNCALNSLG  360
LPLRPGEPVC TFYSRYGICK FGPNCKFDHP MGTLMYGSAT SPRGDVSSMH YQLSPSPGHP  420
GILLDGGSGR SHRVPQSDSQ QIPSGDGNAE REAS*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.149120.0callus| flower| leaf| panicle| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO379881740.0
Expression AtlasQ2QT65-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os12g21700.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs12g21700
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1115110.0AK111511.1 Oryza sativa Japonica Group cDNA clone:J013001J05, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015620174.10.0zinc finger CCCH domain-containing protein 66 isoform X1
SwissprotQ2QT650.0C3H66_ORYSJ; Zinc finger CCCH domain-containing protein 66
TrEMBLA0A0E0RGA40.0A0A0E0RGA4_ORYRU; Uncharacterized protein
TrEMBLI1R5T10.0I1R5T1_ORYGL; Uncharacterized protein
STRINGORUFI12G10410.10.0(Oryza rufipogon)
STRINGOS12T0405100-010.0(Oryza sativa)
STRINGORGLA12G0088700.10.0(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP115338132
Representative plantOGRP12471750
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02830.11e-154zinc finger protein 1
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]