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 AMDW01040602.1_FGP001
Organism
Oryza longistaminata
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: 120aa    MW: 12484.1 Da    PI: 7.447
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AMDW01040602.1_FGP001genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH30.46.5e-10326427
                           ---SGGGGTS--TTTTT-SS-SSS CS
                zf-CCCH  4 elCrffartGtCkyGdrCkFaHgp 27
                            +C ++ + G+Ck+G++CkF H++
  AMDW01040602.1_FGP001  3 QPCAYYTQHGFCKFGPTCKFDHPM 26
                           59********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.723127IPR000571Zinc finger, CCCH-type
SMARTSM003568.8E-4126IPR000571Zinc finger, CCCH-type
PfamPF006421.3E-7326IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.1E-5324IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.57E-6329IPR000571Zinc 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: 120 aa     Download sequence    Send to blast
GSQPCAYYTQ HGFCKFGPTC KFDHPMGTLS YSPSASSITD LPIAPYPLNY AVAPVAPPSS  60
SSDLRPEYLL TKEFSANQSA SPGTTCGPAG AMLKAYAPHM LIRPQTSGAG GMVTTHGGEL
Cis-element ? help Back to Top
SourceLink
PlantRegMapAMDW01040602.1_FGP001
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0739200.0AK073920.1 Oryza sativa Japonica Group cDNA clone:J033073E09, full insert sequence.
GenBankAP0025250.0AP002525.1 Oryza sativa Japonica Group genomic DNA, chromosome 1, PAC clone:P0462H08.
GenBankAP0149570.0AP014957.1 Oryza sativa Japonica Group DNA, chromosome 1, cultivar: Nipponbare, complete sequence.
GenBankCP0126090.0CP012609.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 1 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015622429.17e-78zinc finger CCCH domain-containing protein 5
SwissprotQ5NAV36e-79C3H5_ORYSJ; Zinc finger CCCH domain-containing protein 5
TrEMBLB8AC882e-77B8AC88_ORYSI; Uncharacterized protein
TrEMBLB9EV163e-80B9EV16_ORYSJ; Uncharacterized protein
STRINGOGLUM01G11340.13e-77(Oryza glumipatula)
STRINGORUFI01G10840.13e-77(Oryza rufipogon)
STRINGOS01T0257400-013e-77(Oryza sativa)
STRINGONIVA01G12440.13e-77(Oryza nivara)
STRINGORGLA01G0090000.13e-77(Oryza glaberrima)
STRINGOBART01G09920.12e-77(Oryza barthii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP27613889
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G47850.28e-20C3H 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]