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_Os06g32860.2
Common NameLOC4341164, Os06g0520600, OSJNBa0077L03.22
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: 712aa    MW: 80907.8 Da    PI: 6.383
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os06g32860.2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH283.8e-094570126
                      --S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHg 26
                      ++++ C+++ ++G Ck+G +C ++H+
  LOC_Os06g32860.2 45 PGEPDCSYYVKFGSCKFGISCVYNHP 70
                      5789*********************9 PP
2zf-CCCH291.8e-0991117127
                       --S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                       ++++ C+++ ++G Ck+G +C+F+H+p
  LOC_Os06g32860.2  91 PGEPDCSYYVKFGSCKFGMNCRFNHPP 117
                       5789*********************96 PP
3zf-CCCH34.34.1e-11158183126
                       --S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                       ++t lC++++  G+Ck+G +CkF H+
  LOC_Os06g32860.2 158 PGTGLCSYYMNRGICKFGTNCKFDHP 183
                       5799*********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.6484472IPR000571Zinc finger, CCCH-type
SMARTSM003562.7E-44471IPR000571Zinc finger, CCCH-type
PfamPF006422.2E-64670IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.85990118IPR000571Zinc finger, CCCH-type
SMARTSM003561.7E-490117IPR000571Zinc finger, CCCH-type
PfamPF006421.2E-692117IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.694157185IPR000571Zinc finger, CCCH-type
SMARTSM003569.1E-6157184IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.63E-6158184IPR000571Zinc finger, CCCH-type
PfamPF006422.4E-8159183IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.2E-4160182IPR000571Zinc finger, CCCH-type
SuperFamilySSF483712.88E-30380540IPR016024Armadillo-type fold
Gene3DG3DSA:1.25.40.1806.1E-30380539IPR016021MIF4G-like domain
SMARTSM005432.2E-4384637IPR003890MIF4G-like, type 3
PfamPF028545.1E-21385543IPR003890MIF4G-like, type 3
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0003723Molecular FunctionRNA binding
GO:0005515Molecular Functionprotein binding
GO:0046872Molecular Functionmetal ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009066anatomyanther
PO:0001004developmental stageanther development stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 712 aa     Download sequence    Send to blast
MPQDDDWFWG RPTPVVVGDG ETTSKPKPPV AGKTKKVEEQ HPRRPGEPDC SYYVKFGSCK  60
FGISCVYNHP DPRPQHGADD KKPAEQFPRR PGEPDCSYYV KFGSCKFGMN CRFNHPPRMP  120
VPPQQEYFSG NACHCHHIEG KSKVEQVKLN VLGLPLRPGT GLCSYYMNRG ICKFGTNCKF  180
DHPDPGSDHE KWVVSSNANQ VSSQVNIYSV LDHGESNEHT FTSEEVHQPG IPSFHQRISY  240
TRDQLLQLCQ NVEVPKDILK FCQDINVELN GEDKISGFGA EKDHVQTPSY KRFDATDSRD  300
WHSWSAQTNW EQKFWDNFSE AKEPYSLGWK QEKFNKPDQS SFHFDSKDQW LKFIKCTPCK  360
STLIKAEVPL SIQRGIISGK DEVLKTLKSI LNTFSPKMFD LQKGQLIETR ISSADILKDV  420
INLIFEKVVA EPAFCSTYAQ LCTYLNQNLT PFPPEDCDCE EITFKQALSN KCQEIFESAH  480
TVCSEIGKLI GQDREMEQRD KERVVKLETL GNINFIRALL KKKLITNKII DHIVQAVMDC  540
CKFRFEPLGK VDLLNIIFEG MLDSDSAGDE SNICVNAMIG GNKSSIASND VEMTRKNVNR  600
QNEEAILQKS YDEVPNNKMD PQKNYADGAI SYLIEKEKPT NLESSVRICR GGCSISEIME  660
LVVDAGAVEG SDEHFMATLL FIKPEYREIF LTLDTREGRL GWLKRMYKVK E*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1hu3_A3e-1238253810175EIF4GII
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.540470.0callus| panicle
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329867190.0
Expression AtlasQ5Z5Q3-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os06g32860.2
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs06g32860
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1015100.0AK101510.1 Oryza sativa Japonica Group cDNA clone:J033045L14, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015641849.10.0zinc finger CCCH domain-containing protein 43
RefseqXP_025882269.10.0zinc finger CCCH domain-containing protein 43
SwissprotQ5Z5Q30.0C3H43_ORYSJ; Zinc finger CCCH domain-containing protein 43
TrEMBLA0A0E0J7P60.0A0A0E0J7P6_ORYNI; Uncharacterized protein
STRINGOS06T0520600-010.0(Oryza sativa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02830.15e-31zinc 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. Wang D, et al.
    Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice.
    BMC Genomics, 2008. 9: p. 44
    [PMID:18221561]