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_Os04g57010.2
Common NameLOC4337319, Os04g0665700, OsJ_16534, OSJNBa0087O24.9
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: 221aa    MW: 22639.4 Da    PI: 9.3136
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os04g57010.2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH261.6e-081641227
                      -S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHgp 27
                      kt+ C  +     Ck+Gd+C+FaHg+
  LOC_Os04g57010.2 16 KTRMCTKYNTAEGCKFGDKCHFAHGE 41
                      9***********************96 PP
2zf-CCCH38.71.7e-12187212127
                       --S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                       ykt+lC +f + GtC +GdrC+FaHg+
  LOC_Os04g57010.2 187 YKTKLCENFVK-GTCTFGDRCHFAHGE 212
                       9**********.*************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003560.0461441IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.8921442IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.5E-131546IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.66E-81545IPR000571Zinc finger, CCCH-type
PfamPF006426.1E-51641IPR000571Zinc finger, CCCH-type
SuperFamilySSF547911.37E-1481156IPR004088K Homology domain, type 1
Gene3DG3DSA:3.30.1370.101.4E-1585155IPR004088K Homology domain, type 1
SMARTSM003229.7E-1185155IPR004087K Homology domain
PROSITE profilePS5008414.52986150IPR004088K Homology domain, type 1
CDDcd001052.70E-1488150No hitNo description
PfamPF000138.6E-1188150IPR004088K Homology domain, type 1
Gene3DG3DSA:4.10.1000.103.5E-15185216IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.07E-9185216IPR000571Zinc finger, CCCH-type
SMARTSM003561.4E-8186212IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010317.488186213IPR000571Zinc finger, CCCH-type
PfamPF006425.4E-10187212IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0003723Molecular FunctionRNA 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: 221 aa     Download sequence    Send to blast
MDHAAGGNSH PASSGKTRMC TKYNTAEGCK FGDKCHFAHG ERELGKPAYM SHESAMAPPM  60
GGRYGGRPEP PPPAAMGPPA GNFGASATAK ISVDASLAGG IIGKGGVNTK QICRVTGVKL  120
SIRDHESDSN LKNIELEGNF DQIKQASNMV GELIATISPS TPAKKPAGSA AGAAPAGRGG  180
PGGRSNYKTK LCENFVKGTC TFGDRCHFAH GENEQRKGAA *
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.58100.0callus| flower| leaf| panicle| root| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO379915740.0
Expression AtlasQ7XPK1-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os04g57010.2
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs04g57010
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL6066460.0AL606646.3 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBa0087O24, complete sequence.
GenBankAP0149600.0AP014960.1 Oryza sativa Japonica Group DNA, chromosome 4, cultivar: Nipponbare, complete sequence.
GenBankCP0126120.0CP012612.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 4 sequence.
GenBankCR8550380.0CR855038.1 Oryza sativa genomic DNA, chromosome 4, BAC clone: H1005F08, complete sequence.
GenBankCT8338350.0CT833835.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCSA025P11, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015636567.11e-159zinc finger CCCH domain-containing protein 31
SwissprotQ7XPK11e-160C3H31_ORYSJ; Zinc finger CCCH domain-containing protein 31
TrEMBLB8AVZ71e-158B8AVZ7_ORYSI; Uncharacterized protein
TrEMBLQ01MN31e-158Q01MN3_ORYSA; H1005F08.11 protein
STRINGOS04T0665700-011e-159(Oryza sativa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G12130.11e-52C3H 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. Wang D, et al.
    Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice.
    BMC Genomics, 2008. 9: p. 44
    [PMID:18221561]