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 AMDW01076631.1_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: 74aa    MW: 8633.59 Da    PI: 9.1421
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AMDW01076631.1_FGP001genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH18.24.5e-063856625
                           -SGGGGTS--TTTTT-SS-S CS
                zf-CCCH  6 CrffartGtCkyGdrCkFaH 25
                           C+f+ r G+C +G+ C++ H
  AMDW01076631.1_FGP001 38 CSFYVR-GECTRGAECPYRH 56
                           **9999.**********987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF161315.4E-91369IPR032297Torus domain
PROSITE profilePS5010313.9573259IPR000571Zinc finger, CCCH-type
SMARTSM003561.7E-53258IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.01E-73457IPR000571Zinc 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: 74 aa     Download sequence    Send to blast
ARAGIDYDSS NGKARPNDTI LKLQRTSPYY KRNRAHVCSF YVRGECTRGA ECPYRHEMPE  60
TGELSQQNIK DRYY
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5mqf_P2e-221774144203Pre-mRNA-splicing factor RBM22
5xjc_O2e-221774144203Pre-mRNA-splicing factor RBM22
5yzg_O2e-221774144203Pre-mRNA-splicing factor RBM22
5z56_O2e-221774144203Pre-mRNA-splicing factor RBM22
5z57_O2e-221774144203Pre-mRNA-splicing factor RBM22
6ff4_P2e-221774144203Pre-mRNA-splicing factor RBM22
6ff7_P2e-221774144203Pre-mRNA-splicing factor RBM22
6icz_O2e-221774144203Pre-mRNA-splicing factor RBM22
6id0_O2e-221774144203Pre-mRNA-splicing factor RBM22
6id1_O2e-221774144203Pre-mRNA-splicing factor RBM22
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapAMDW01076631.1_FGP001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1116898e-99AK111689.1 Oryza sativa Japonica Group cDNA clone:J023003O14, full insert sequence.
GenBankAP0052608e-99AP005260.4 Oryza sativa Japonica Group genomic DNA, chromosome 7, PAC clone:P0557D09.
GenBankAP0149638e-99AP014963.1 Oryza sativa Japonica Group DNA, chromosome 7, cultivar: Nipponbare, complete sequence.
GenBankCP0126158e-99CP012615.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 7 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015643850.15e-45zinc finger CCCH domain-containing protein 40
RefseqXP_023521443.16e-46zinc finger CCCH domain-containing protein 4-like
SwissprotQ5SNN44e-46C3H40_ORYSJ; Zinc finger CCCH domain-containing protein 40
TrEMBLA0A0E0Q6N87e-45A0A0E0Q6N8_ORYRU; Uncharacterized protein
TrEMBLA0A392QI584e-45A0A392QI58_9FABA; Zinc finger CCCH domain-containing protein 40-like (Fragment)
TrEMBLA2YK874e-45A2YK87_ORYSI; Uncharacterized protein
STRINGORUFI07G10340.11e-45(Oryza rufipogon)
STRINGTraes_7AS_8F9CC5DDB.17e-46(Triticum aestivum)
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]