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 MDP0000459204
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: 218aa    MW: 25601.8 Da    PI: 11.1633
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
MDP0000459204genomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH201.2e-064366226
                   -S---SGGGGTS--TTTTT-SS-SS CS
        zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHg 26
                   +++ Cr + +   C++G+ C+F+H 
  MDP0000459204 43 REATCRQYEE-NVCNRGGYCNFMHL 66
                   6789**9999.*************6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.70.3302.2E-9238IPR012677Nucleotide-binding alpha-beta plait domain
SuperFamilySSF549288.42E-10242IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018482.4E-162347IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010310.4654168IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-44366IPR000571Zinc finger, CCCH-type
PRINTSPR018482.4E-165870IPR009145U2 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: 218 aa     Download sequence    Send to blast
MVGNVYVQFR EEEHAQAALQ NLTGRFYAGR PIIVDFSPVT DFREATCRQY EENVCNRGGY  60
CNFMHLKKIS RELRRRLFGR NKRRHSRSRS RSRSPQRHHR GGYQERPHGG RGFGRRGEDD  120
RDHRFNDKSR RPRSRSPGRR GRSRSPVGAG GRRRSPPARE SSAERRAKIE QWNKEREQVD  180
SGNKYDDNNN SNNQDDQWNG SAENNDQYYD DPHQQQQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A3e-24177103179Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Mdo.155460.0bud| fruit| leaf| root| stem
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_009353013.11e-156PREDICTED: splicing factor U2af small subunit B-like
RefseqXP_028948934.11e-156splicing factor U2af small subunit B-like
SwissprotQ9ZQW81e-45U2AFA_ORYSJ; Splicing factor U2af small subunit A
TrEMBLA0A498HXU41e-155A0A498HXU4_MALDO; Uncharacterized protein
STRINGXP_009353013.11e-155(Pyrus x bretschneideri)
STRINGXP_008391802.11e-156(Malus domestica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF2189333
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.15e-10C3H 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]