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 AT3G44785.1
Organism
Arabidopsis thaliana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family C3H
Protein Properties Length: 75aa    MW: 8742.11 Da    PI: 10.0505
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AT3G44785.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH26.79.6e-091435223
                 -S---SGGGGTS--TTTTT-SS CS
      zf-CCCH  2 ktelCrffartGtCkyGdrCkF 23
                 ++++C+f+++ G C+ GdrC++
  AT3G44785.1 14 DRVNCPFYFKIGVCRNGDRCSR 35
                 689*****************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS501039.9581240IPR000571Zinc finger, CCCH-type
PfamPF006422.4E-61435IPR000571Zinc finger, CCCH-type
PRINTSPR018486.2E-141837IPR009145U2 auxiliary factor small subunit
PRINTSPR018486.2E-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: 75 aa     Download sequence    Send to blast
MVEHLASIYG TEKDRVNCPF YFKIGVCRNG DRCSRLYTKP SISPTLLLSN TYQQGRLKQF  60
LDPVQSREKD PKKKF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A4e-19153153Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasAT3G44785
AtGenExpressAT3G44785
Functional Description ? help Back to Top
Source Description
UniProtNecessary for the splicing of pre-mRNA (By similarity). Probably active at the 3' splice sites. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT3G44785.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT3G44785
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0025341e-124AC002534.1 Arabidopsis thaliana BAC T32N15 from chromosome III near 54 cM, complete sequence.
GenBankCP0026861e-124CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_974385.12e-50Zinc finger C-x8-C-x5-C-x3-H type family protein
SwissprotQ9S7092e-27U2AFA_ARATH; Splicing factor U2af small subunit A
TrEMBLQ3EAP84e-49Q3EAP8_ARATH; Zinc finger C-x8-C-x5-C-x3-H type family protein
STRINGAT3G44785.17e-50(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM2112344
Representative plantOGRP157633
Publications ? help Back to Top
  1. Delaney KJ, et al.
    Calmodulin interacts with and regulates the RNA-binding activity of an Arabidopsis polyadenylation factor subunit.
    Plant Physiol., 2006. 140(4): p. 1507-21
    [PMID:16500995]
  2. Day IS, et al.
    Interactions of SR45, an SR-like protein, with spliceosomal proteins and an intronic sequence: insights into regulated splicing.
    Plant J., 2012. 71(6): p. 936-47
    [PMID:22563826]
  3. Kim DW,Jeon SJ,Hwang SM,Hong JC,Bahk JD
    The C3H-type zinc finger protein GDS1/C3H42 is a nuclear-speckle-localized protein that is essential for normal growth and development in Arabidopsis.
    Plant Sci., 2016. 250: p. 141-153
    [PMID:27457991]
  4. Park HY, et al.
    The Arabidopsis splicing factors, AtU2AF65, AtU2AF35, and AtSF1 shuttle between nuclei and cytoplasms.
    Plant Cell Rep., 2017. 36(7): p. 1113-1123
    [PMID:28432478]