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 DCAR_020780
Organism
Daucus carota
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; campanulids; Apiales; Apiineae; Apiaceae; Apioideae; Scandiceae; Daucinae; Daucus
Family C3H
Protein Properties Length: 253aa    MW: 29107.9 Da    PI: 10.764
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
DCAR_020780genomeARS-USDAView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH29.21.6e-091437225
                 -S---SGGGGTS--TTTTT-SS-S CS
      zf-CCCH  2 ktelCrffartGtCkyGdrCkFaH 25
                 ++++C+f+++ G C++GdrC++ H
  DCAR_020780 14 DRVNCPFYFKIGACRHGDRCSRLH 37
                 6899******************** PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.1121240IPR000571Zinc finger, CCCH-type
SMARTSM003560.00651339IPR000571Zinc finger, CCCH-type
PfamPF006423.4E-71437IPR000571Zinc finger, CCCH-type
PRINTSPR018483.0E-201837IPR009145U2 auxiliary factor small subunit
PRINTSPR018483.0E-203757IPR009145U2 auxiliary factor small subunit
PROSITE profilePS501036.3996998IPR000571Zinc finger, CCCH-type
SMARTSM00356387197IPR000571Zinc finger, CCCH-type
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: 253 aa     Download sequence    Send to blast
MAEHLASIFG TEKDRVNCPF YFKIGACRHG DRCSRLHTKP SISPTLLLSN MYQRPDMITP  60
GVDPQGQPLD PRKIQDHFEY EENVCNRGGY CNFMHLKKIS RELRRQLFGK NRRGRSRSRS  120
RSPQHNRGYE ERPHGGGRGY GRRGDYADHR QNDRGRRPRS RSPGRRGGRS RSPSGRRNKS  180
PVREGSAERR AKIEQWNRER DQAETGNKSA NNYSNDDRNS DGNGNGNAHN KEQYYEPHQQ  240
RQNVPDDGGY SN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A6e-2411681161Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1112120RGRSRSRSR
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}.
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_017258326.17e-81PREDICTED: splicing factor U2af small subunit B-like
RefseqXP_017258327.17e-81PREDICTED: splicing factor U2af small subunit B-like
RefseqXP_017258328.17e-81PREDICTED: splicing factor U2af small subunit B-like
SwissprotQ9FMY52e-50U2AFB_ARATH; Splicing factor U2af small subunit B
TrEMBLA0A164WJK40.0A0A164WJK4_DAUCS; Uncharacterized protein
STRINGXP_010278242.16e-60(Nelumbo nucifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA1786934
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G44785.13e-31C3H family protein
Publications ? help Back to Top
  1. 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]
  2. 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]
  3. 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]