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 Bv7_178700_mioy.t1
Organism
Beta vulgaris
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Chenopodiaceae; Betoideae; Beta
Family C3H
Protein Properties Length: 119aa    MW: 13787.8 Da    PI: 8.8164
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bv7_178700_mioy.t1genomeTBVRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH22.91.5e-0789112226
                         -S---SGGGGTS--TTTTT-SS-SS CS
             zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                         +++ Cr + +  tC++G+ C+F+H 
  Bv7_178700_mioy.t1  89 REATCRQYEE-NTCNRGGYCNFMHL 112
                         6789**9999.*************6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PRINTSPR018485.4E-194264IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3307.0E-64383IPR012677Nucleotide-binding alpha-beta plait domain
SuperFamilySSF549283.83E-74687IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018485.4E-196993IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010310.70987114IPR000571Zinc finger, CCCH-type
PfamPF006421.9E-589112IPR000571Zinc finger, CCCH-type
PRINTSPR018485.4E-19104116IPR009145U2 auxiliary factor small subunit
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000398Biological ProcessmRNA splicing, via spliceosome
GO:0089701Cellular ComponentU2AF
GO:0000166Molecular Functionnucleotide binding
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 119 aa     Download sequence    Send to blast
MNSRSFPSPV CSSSCEFRPY FKQLCSITTT PLPITITPFH RQSKIIPVGN VYIQYLEEEQ  60
VADALRNLTR RLYSGRPIIV DFSPVTGFRE ATCRQYEENT CNRGGYCNFM HLKKINREL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A1e-2048114104170Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtNecessary for the splicing of pre-mRNA. {ECO:0000250}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019102661.12e-84PREDICTED: splicing factor U2af small subunit A-like
SwissprotQ9ZQW82e-33U2AFA_ORYSJ; Splicing factor U2af small subunit A
TrEMBLA0A0J8BAT95e-83A0A0J8BAT9_BETVU; Uncharacterized protein
STRINGXP_010690014.16e-40(Beta vulgaris)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.12e-07C3H 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. Domon C,Lorković ZJ,Valcárcel J,Filipowicz W
    Multiple forms of the U2 small nuclear ribonucleoprotein auxiliary factor U2AF subunits expressed in higher plants.
    J. Biol. Chem., 1998. 273(51): p. 34603-10
    [PMID:9852132]