PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID LOC_Os05g41790.1
Common NameOJ1118_C04.11, Os05g0497500, OsJ_018290, P0010D04.1
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: 647aa    MW: 70229 Da    PI: 9.374
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os05g41790.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.61.6e-06123143425
                       ---SGGGGTS--TTTTT-SS-S CS
           zf-CCCH   4 elCrffartGtCkyGdrCkFaH 25 
                       + C f+a+ G Ck G +C+F H
  LOC_Os05g41790.1 123 RTCTFYAQ-GRCKNGKSCTFLH 143
                       78******.************* PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.102.8E-5118144IPR000571Zinc finger, CCCH-type
SMARTSM003560.0043119145IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.605119146IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.14E-6119144IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA 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: 647 aa     Download sequence    Send to blast
MAGGGRGAGL PAAGEAAKAG RVGVGTTKRA RDPSPNSKDP NGFVGVIAAE KKPALQLHGD  60
EKYQKKAGND PVPPTIDDTS KTGGLHLHGG HVSQSPPDSN ALSSQRFGSS SPGGDMKNKT  120
RKRTCTFYAQ GRCKNGKSCT FLHEGEVSGS DNQVYGNHGG TGEGSEIQHP SSSKEHQFKN  180
SAGSSQHEIY RTLVHAYGED NRGLTHPVVK HSCHMLKASH GFKIGGSLTA NPTNEVVQLP  240
VVQEKNHEPY FMGHQISLGT NNCLNDMGAY SRLRLDGGKL QFEVAKGDSP RDSHLSRSYL  300
EKNPLKPDYR YQPFDSTISL DPHQYSKKLS AYGGATENLP HKHQEEKSSS HVSYSLNSYT  360
GFRKQGHDSS DFFLVNQSLR ATSHHGTLPL HQLTPDKDAS HHKGADFDKG GTSRSTLHVS  420
SSSQPVVASA GKLSPIKDEV WITSVPFVPS FNFPDFPGST SPSKSQYDPL VDSIDPPKVE  480
SLNNLKTSNI SCSISSQHVD TNVIRGGSLE KPLTFADKLA RNVSAKGSND FGLISYDRGH  540
SSSLDGDNRV KTCERKNDAS LNNEKSDFRF HLVEHVKELV KPIWKEGNLS KEAHKLIVKK  600
SVDKIFASLE PNQMPETEKA ITTYITASAP KIEKLVKAYV DRYRTS*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.985910.0panicle| stem
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasQ75K81
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os05g41790.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs05g41790
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1085230.0AC108523.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1118_C04, complete sequence.
GenBankAC1306050.0AC130605.3 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone P0010D04, complete sequence.
GenBankAP0149610.0AP014961.1 Oryza sativa Japonica Group DNA, chromosome 5, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015640223.10.0zinc finger CCCH domain-containing protein 36
SwissprotQ75K810.0C3H36_ORYSJ; Zinc finger CCCH domain-containing protein 36
TrEMBLA0A0E0HGD50.0A0A0E0HGD5_ORYNI; Uncharacterized protein
STRINGONIVA05G22280.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP110102123
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33835.13e-15C3H family protein
Publications ? help Back to Top
  1. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  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]