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_Os08g06330.1
Common NameLOC4344715, Os08g0159800, P0498E12.129, P0672D01.112
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: 368aa    MW: 37957.8 Da    PI: 7.2569
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os08g06330.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH314.3e-1088113127
                       --S---SGGGGTS--TTTTT-SS-SSS CS
           zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                       +kt+lC+ f++ GtC+y  +C+FaHg+
  LOC_Os08g06330.1  88 FKTKLCCKFRA-GTCPYVTNCNFAHGM 113
                       69*********.*************95 PP
2zf-CCCH17.95.4e-06170195126
                       --S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                       yk + C+ f+    C+yGd C+F H+
  LOC_Os08g06330.1 170 YKGRHCKKFYTDEGCPYGDACTFLHD 195
                       77888********************7 PP
3zf-CCCH43.35.9e-14246271126
                       --S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                       +kt++C+ +  tG+C++G++C+FaHg
  LOC_Os08g06330.1 246 WKTRICNKWEMTGYCPFGSKCHFAHG 271
                       8************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF902293.79E-885118IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.0E-1485120IPR000571Zinc finger, CCCH-type
SMARTSM003560.001487113IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.02887114IPR000571Zinc finger, CCCH-type
PfamPF006422.3E-788113IPR000571Zinc finger, CCCH-type
SMARTSM003560.43169196IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.66E-7169197IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.3E-8169197IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.629169197IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.4E-17240275IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.23E-10241276IPR000571Zinc finger, CCCH-type
SMARTSM003567.1E-9245272IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.422245273IPR000571Zinc finger, CCCH-type
PfamPF006426.7E-11246271IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0061158Biological Process3'-UTR-mediated mRNA destabilization
GO:0005829Cellular Componentcytosol
GO:0003677Molecular FunctionDNA binding
GO:0003730Molecular FunctionmRNA 3'-UTR binding
GO:0046872Molecular Functionmetal ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009089anatomyendosperm
PO:0007042developmental stagewhole plant fruit formation stage
PO:0007633developmental stageendosperm development stage
Sequence ? help Back to Top
Protein Sequence    Length: 368 aa     Download sequence    Send to blast
MDYTNAIHII PDAAGPDAWA NAAAQGGDAG IWATEDDYNS QWNADGGGGG SSRAGSEQPP  60
PGKKSRGGGG GEGGGNTSKS RAIGKMFFKT KLCCKFRAGT CPYVTNCNFA HGMEELRKPP  120
PNWQEIVAAH EEATEAREEH QIPIMTSSGP TAGGDAGCGG GGGGGSGRAY KGRHCKKFYT  180
DEGCPYGDAC TFLHDEQSKA RESVAISLSP SVGGGGGGGS YNSAAAAAAS ASAAAGNGPM  240
QKPSNWKTRI CNKWEMTGYC PFGSKCHFAH GAAELHKYGG GLVDIDSRDA AATPDSKQAV  300
VSAKAPAETA AASTTVLPHA DVYHLGVQAQ RSTIAGQRSG QVQRPIQKWK GPDKISRIYG  360
DWIDETE*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.484160.0panicle| stem
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasQ84UQ3
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os08g06330.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs08g06330
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0046350.0AP004635.3 Oryza sativa Japonica Group genomic DNA, chromosome 8, PAC clone:P0672D01.
GenBankAP0046980.0AP004698.3 Oryza sativa Japonica Group genomic DNA, chromosome 8, PAC clone:P0498E12.
GenBankAP0149640.0AP014964.1 Oryza sativa Japonica Group DNA, chromosome 8, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015648128.10.0zinc finger CCCH domain-containing protein 56
RefseqXP_015648129.10.0zinc finger CCCH domain-containing protein 56
SwissprotQ84UQ30.0C3H56_ORYSJ; Zinc finger CCCH domain-containing protein 56
TrEMBLA0A0E0I7G90.0A0A0E0I7G9_ORYNI; Uncharacterized protein
STRINGOS08T0159800-000.0(Oryza sativa)
STRINGONIVA08G03600.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP66153853
Representative plantOGRP20451737
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G32360.12e-93C3H 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]