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_Os11g28270.3
Common NameLOC4350492, Os11g0472000
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: 370aa    MW: 39947.2 Da    PI: 8.5657
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os11g28270.3genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH33.76.3e-115982326
                      S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH  3 telCrffartGtCkyGdrCkFaHg 26
                      ++ C++++rtG C++G +CkF+H+
  LOC_Os11g28270.3 59 EPDCSYYMRTGLCRFGMTCKFNHP 82
                      789********************8 PP
2zf-CCCH39.11.2e-12104128327
                       S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                       +++C+++++tGtCk+G++CkF+H++
  LOC_Os11g28270.3 104 QPECQYYLKTGTCKFGATCKFHHPR 128
                       799********************96 PP
3zf-CCCH36.96.1e-12150174327
                       S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                       +++C +++rtG+Ck+G++CkF+H++
  LOC_Os11g28270.3 150 EKECAYYLRTGQCKFGSTCKFHHPQ 174
                       679********************97 PP
4zf-CCCH39.87.3e-13311336227
                       -S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                       ++++C+f+++tG Ck+G+ CkF+H++
  LOC_Os11g28270.3 311 DQPECQFYMKTGDCKFGAVCKFHHPK 336
                       689*********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003561.7E-45683IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.8685684IPR000571Zinc finger, CCCH-type
PfamPF006422.1E-85982IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.57E-56184IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.1E-46283IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.244101129IPR000571Zinc finger, CCCH-type
SMARTSM003565.0E-6101128IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.44E-6104130IPR000571Zinc finger, CCCH-type
PfamPF006425.1E-10104128IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.3E-5107129IPR000571Zinc finger, CCCH-type
SMARTSM003563.4E-5147174IPR000571Zinc finger, CCCH-type
SuperFamilySSF902299.16E-7147175IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.619147175IPR000571Zinc finger, CCCH-type
PfamPF006421.0E-9150174IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.3E-4153173IPR000571Zinc finger, CCCH-type
SMARTSM003564.7E-5309336IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.511309337IPR000571Zinc finger, CCCH-type
PfamPF006421.8E-9311336IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.26E-5312337IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.3E-4315336IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0017148Biological Processnegative regulation of translation
GO:0005829Cellular Componentcytosol
GO:0003677Molecular FunctionDNA binding
GO:0010313Molecular Functionphytochrome binding
GO:0046872Molecular Functionmetal ion binding
GO:0048027Molecular FunctionmRNA 5'-UTR 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: 370 aa     Download sequence    Send to blast
MAAAPSAGGV GEGSSSSAAA AAAAAAATIG PHVVDEEAMW QMNLGEAMEA GPYPERIGEP  60
DCSYYMRTGL CRFGMTCKFN HPADRKMAVA AARMKGEYPQ RIGQPECQYY LKTGTCKFGA  120
TCKFHHPREK AAIATRVQLN ALGYPLRPNE KECAYYLRTG QCKFGSTCKF HHPQPSNTMV  180
AVRGSVYSPG QSVTSPSQHT YPGAVTNWPL SRSASFIASP RWPGHSSYAQ VIVPPGLVQV  240
PGWNPYAAQI GSSSSDDQQR TAGGAQYYTG SRHSETPNMG DQGMFSSYQA GSVPLGLYTV  300
QRESIFPERP DQPECQFYMK TGDCKFGAVC KFHHPKERII PTPNCALSSL GLPLRPVRES  360
FIALYTLSS*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.129140.0callus| flower| leaf| panicle| root| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1154854680.0
Expression AtlasQ2R4J4-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os11g28270.3
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs11g28270
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJX9721480.0JX972148.1 Oryza sativa Japonica Group clone KCS005D01 zinc finger protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015617449.10.0zinc finger CCCH domain-containing protein 63 isoform X1
SwissprotQ2R4J40.0C3H63_ORYSJ; Zinc finger CCCH domain-containing protein 63
TrEMBLA0A0E0J1U00.0A0A0E0J1U0_ORYNI; Uncharacterized protein
TrEMBLA0A0E0R8980.0A0A0E0R898_ORYRU; Uncharacterized protein
TrEMBLU5KNJ10.0U5KNJ1_ORYSJ; Zinc finger protein
STRINGORGLA11G0112800.10.0(Oryza glaberrima)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02830.11e-135zinc 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]