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 MDP0000870890
Organism
Malus domestica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Maleae; Malus
Family C3H
Protein Properties Length: 94aa    MW: 10548.2 Da    PI: 10.7272
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
MDP0000870890genomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH25.81.8e-081537325
                   S---SGGGGTS--TTTTT-SS-S CS
        zf-CCCH  3 telCrffartGtCkyGdrCkFaH 25
                   +++C+f+++ G C++ drC++ H
  MDP0000870890 15 RVNCPFYFKIGACRHSDRCSRLH 37
                   789******************** PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010311.2161240IPR000571Zinc finger, CCCH-type
PfamPF006423.3E-61537IPR000571Zinc finger, CCCH-type
PRINTSPR018481.0E-141837IPR009145U2 auxiliary factor small subunit
PRINTSPR018481.0E-143757IPR009145U2 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:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 94 aa     Download sequence    Send to blast
MAKHLASIFG TEKXRVNCPF YFKIGACRHS DRCSRLHTKP SVSPTILLSN IMYLLELLDR  60
RARPTLTTQI LSPLNHLHNP QVWGFITKGL GIS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A5e-19151151Splicing 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_002528581.12e-29splicing factor U2af small subunit B
RefseqXP_012066503.12e-29splicing factor U2af small subunit B
RefseqXP_015580499.12e-29splicing factor U2af small subunit B
RefseqXP_020533185.12e-29splicing factor U2af small subunit B
SwissprotQ9ZQW81e-28U2AFA_ORYSJ; Splicing factor U2af small subunit A
TrEMBLD5ABW92e-28D5ABW9_PICSI; Uncharacterized protein
STRINGXP_002528581.16e-29(Ricinus communis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF47132433
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G44785.11e-27C3H 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]