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_Os06g41384.1
Common NameLOC4341537, Os06g0618100, P0012B02.7-1
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: 296aa    MW: 30451.6 Da    PI: 10.0473
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os06g41384.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.63.7e-073458226
                      -S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHg 26
                      k ++C  f+ t  C++G++C+F H 
  LOC_Os06g41384.1 34 KLKPCTKFFSTSGCPFGSSCHFLHN 58
                      6689********************7 PP
2zf-CCCH20.11.1e-06100125227
                       -S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                       kt+ C+ +     Ck G++C+FaHg+
  LOC_Os06g41384.1 100 KTRMCNKYNTAEGCKWGSKCHFAHGE 125
                       89**********************96 PP
3zf-CCCH36.67.6e-12260285127
                       --S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                       +kt+lC +f + G C +GdrC+FaHg+
  LOC_Os06g41384.1 260 FKTKLCENFNK-GSCTFGDRCHFAHGE 285
                       69*********.*************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003560.083259IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.7933260IPR000571Zinc finger, CCCH-type
PfamPF006421.9E-53458IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.107.2E-83458IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.53E-63460IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.5E-1495130IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.45E-898129IPR000571Zinc finger, CCCH-type
SMARTSM003560.9798125IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.72798126IPR000571Zinc finger, CCCH-type
SMARTSM003221.5E-10165235IPR004087K Homology domain
Gene3DG3DSA:3.30.1370.105.3E-15166234IPR004088K Homology domain, type 1
PROSITE profilePS5008414.802166230IPR004088K Homology domain, type 1
PfamPF000135.6E-11168231IPR004088K Homology domain, type 1
CDDcd001052.46E-13168230No hitNo description
SuperFamilySSF547913.51E-15168260IPR004088K Homology domain, type 1
Gene3DG3DSA:4.10.1000.102.4E-17257292IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.97E-9259290IPR000571Zinc finger, CCCH-type
SMARTSM003561.5E-7259285IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010317.131259286IPR000571Zinc finger, CCCH-type
PfamPF006421.8E-9260285IPR000571Zinc 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:0009066anatomyanther
PO:0001004developmental stageanther development stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 296 aa     Download sequence    Send to blast
MEAGGGKRAA PEGTNGAAKR ARASESSQVG VGSKLKPCTK FFSTSGCPFG SSCHFLHNFP  60
GGYQAAAKMT SHGGTAVAAP PGRMPLGPGA PNGPPTSSVK TRMCNKYNTA EGCKWGSKCH  120
FAHGERELGK PMLLDNSMPH PMGSMPFEAP PMPGPDIVPP STFGASATAK ISVDASLAGG  180
IIGKGGTNTK HISRMTGAKL AIRDNESNPN LKNIELEGTF DQIKHASAMV TELIVRISGN  240
APPAKNPGRG SHAGGPGSNF KTKLCENFNK GSCTFGDRCH FAHGESELRK PPAAA*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.496880.0callus| flower| leaf| panicle| root| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329889960.0
Expression AtlasQ69XQ3-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os06g41384.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs06g41384
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0036090.0AP003609.2 Oryza sativa Japonica Group genomic DNA, chromosome 6, PAC clone:P0012B02.
GenBankAP0149620.0AP014962.1 Oryza sativa Japonica Group DNA, chromosome 6, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015641069.10.0zinc finger CCCH domain-containing protein 44
SwissprotQ69XQ30.0C3H44_ORYSJ; Zinc finger CCCH domain-containing protein 44
TrEMBLI1Q3P40.0I1Q3P4_ORYGL; Uncharacterized protein
STRINGORGLA06G0175700.10.0(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP125438127
Representative plantOGRP10261756
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G06770.15e-62C3H family protein
Publications ? help Back to Top
  1. Wang D, et al.
    Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice.
    BMC Genomics, 2008. 9: p. 44
    [PMID:18221561]