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_Os06g46400.1
Common NameOs06g0677700, OSNPB_060677700
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: 666aa    MW: 72597.5 Da    PI: 6.7427
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os06g46400.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.12.3e-06117137526
                       --SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH   5 lCrffartGtCkyGdrCkFaHg 26 
                       +C+ +   G+C+ G++C++ H+
  LOC_Os06g46400.1 117 ECNMYKM-GFCPNGPNCRYKHV 137
                       6666666.*************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003563.6E-55884IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.9575885IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.89E-65983IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.108.3E-55985IPR000571Zinc finger, CCCH-type
PROSITE profilePS501038.59686111IPR000571Zinc finger, CCCH-type
SMARTSM003560.0186112IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.065112139IPR000571Zinc finger, CCCH-type
SMARTSM003560.0031114138IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.109.8E-4118136IPR000571Zinc finger, CCCH-type
PROSITE profilePS5088257.421260395IPR007275YTH domain
PfamPF041464.8E-44260394IPR007275YTH domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006979Biological Processresponse to oxidative stress
GO:0034052Biological Processpositive regulation of plant-type hypersensitive response
GO:1900363Biological Processregulation of mRNA polyadenylation
GO:2000031Biological Processregulation of salicylic acid mediated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0003723Molecular FunctionRNA binding
GO:0004521Molecular Functionendoribonuclease activity
GO:0005516Molecular Functioncalmodulin 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: 666 aa     Download sequence    Send to blast
MDDGDLSFDF EGGLDQPPAG GGGGPAPHSS DPGGVGGGGG GGGPGDGGGH GRGRGRGSYR  60
QTVCRHWLRG LCMKGEACGF LHQFDKARMP VCRFFRDFGE CREPDCAYKH SYDDVKECNM  120
YKMGFCPNGP NCRYKHVKLP GPPPPVEEVL QKILQIRSFN KFNQHRHNNY NQQGERPQHP  180
QGSGLPNQNS IDNTTTTTAQ PAVGQQAQTT NQQPPQQQQQ QQQQQQQQQK PNTNDQVQSV  240
PNGSSNQATR IATPLPQGPS RYFIVKSCNR ENLEISVQQG IWATQRSNEA KLNEAFESIE  300
NVILIFSINR TRNFQGCAKM TSRIGGYIGG GNWKSAHGTA HYGRNFSIQW LKLCELSFQK  360
THHLRNPYND NLPVKISRDC QELEPFIGEQ LASLLYLEPD SELTAILIAA EAKKEEEKAK  420
GVSADEAADN QDIVLFDDNE EEEEEESEEE EEGNGQESQG RGRGRGMMWP PQMPMLRGVG  480
PMMGGRGFPP NMIGDGFGFG GGFGMPDPFG VPRGFPPFGP RFPGDFARGG PMPGMVFPGR  540
PPQPGGMFPM GLEMMMGPGR GPLMGGLGMG GPGRPNRPVG MAPFMPPPPP PNNRGTKREQ  600
RRPGGERGDR YETTSDQGSR GHDATGNSGA EGARSQSGDR YGRSALRDDD SESDEEAAPR  660
RSRKR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zuu_A1e-103245423218030-kDa cleavage and polyadenylation specificity factor 30
5zuu_B1e-103245423218030-kDa cleavage and polyadenylation specificity factor 30
5zuu_C1e-103245423218030-kDa cleavage and polyadenylation specificity factor 30
5zuu_D1e-103245423218030-kDa cleavage and polyadenylation specificity factor 30
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.688270.0callus| leaf| panicle| root
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasA0A0P0X0B1
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os06g46400.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs06g46400
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0037280.0AP003728.3 Oryza sativa Japonica Group genomic DNA, chromosome 6, PAC clone:P0710B08.
GenBankAP0049890.0AP004989.3 Oryza sativa Japonica Group genomic DNA, chromosome 6, BAC clone:B1153E06.
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_015644405.10.0zinc finger CCCH domain-containing protein 45
SwissprotQ0DA500.0C3H45_ORYSJ; Zinc finger CCCH domain-containing protein 45
TrEMBLA0A0P0X0B10.0A0A0P0X0B1_ORYSJ; Os06g0677700 protein
STRINGOS06T0677700-000.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP59892428
Representative plantOGRP499234