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 ORGLA05G0232200.1
Organism
Oryza glaberrima
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
Family C3H
Protein Properties Length: 347aa    MW: 37392.4 Da    PI: 8.2758
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA05G0232200.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH48.41.5e-15273298126
                        --S---SGGGGTS--TTTTT-SS-SS CS
            zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                        +ktelC+ + +tG C+yGd+C+FaHg
  ORGLA05G0232200.1 273 FKTELCNKWEETGACPYGDQCQFAHG 298
                        79***********************9 PP
2zf-CCCH23.78.7e-08311336126
                        --S---SGGGGTS--TTTTT-SS-SS CS
            zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                        ykt  Cr  +++G C+yG rC+F H+
  ORGLA05G0232200.1 311 YKTQVCRMVLAGGVCPYGHRCHFRHS 336
                        9**********************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.109.5E-19267305IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.31E-10269304IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.601272300IPR000571Zinc finger, CCCH-type
SMARTSM003567.2E-10272299IPR000571Zinc finger, CCCH-type
PfamPF006421.1E-12273298IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.6E-12306336IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.16E-8306338IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.685310338IPR000571Zinc finger, CCCH-type
SMARTSM003568.9E-5310337IPR000571Zinc finger, CCCH-type
PfamPF006424.4E-5311336IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 347 aa     Download sequence    Send to blast
MQEALLPPAH PGRFYSDFGP KPFGGGDQRL SSPNLLTNGG DLFYGCYSPF SPTRVLSPPP  60
PPRRAASFSH CSSSSDSVVD DGDGAGAAAA AAAATEHRLH LAHLALQYQE MANRFELCLS  120
HLADAADEAA ALRQENAELR VANNDLACRI AKFGGRQSSA IALAGDLRRL RLPKEQTVPA  180
LPPPPQSPPA ALMNPVAVPE KQAVLPKSIS IRSTGYQKLN QGGKHRVSKP VNVGSQRVFV  240
GIDGAEGGEH KVGVKEEPPM GGLEFEVYNQ GMFKTELCNK WEETGACPYG DQCQFAHGVA  300
ELRPVIRHPR YKTQVCRMVL AGGVCPYGHR CHFRHSITPA DRFSFGH
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1rgo_A2e-22273336467Butyrate response factor 2
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapORGLA05G0232200.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1063540.0AK106354.1 Oryza sativa Japonica Group cDNA clone:002-102-A03, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015640820.10.0zinc finger CCCH domain-containing protein 39
SwissprotQ6L5G10.0C3H39_ORYSJ; Zinc finger CCCH domain-containing protein 39
TrEMBLI1PY740.0I1PY74_ORYGL; Uncharacterized protein
STRINGORGLA05G0232200.10.0(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP27753784
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G66810.12e-55C3H 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. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]