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 Ciclev10030365m
Common NameCICLE_v10030365mg
Organism
Citrus clementina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family C3H
Protein Properties Length: 230aa    MW: 26754.3 Da    PI: 6.7774
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10030365mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH20.68e-07120136622
                      -SGGGGTS--TTTTT-S CS
          zf-CCCH   6 CrffartGtCkyGdrCk 22 
                      C+f+++tG C++G rC+
  Ciclev10030365m 120 CPFHLKTGACWFGQRCS 136
                      ****************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PRINTSPR018486.9E-9120139IPR009145U2 auxiliary factor small subunit
PfamPF006428.1E-5120137IPR000571Zinc finger, CCCH-type
PRINTSPR018486.9E-9139159IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549281.05E-7174209IPR012677Nucleotide-binding alpha-beta plait domain
Gene3DG3DSA:3.30.70.3305.6E-8177208IPR012677Nucleotide-binding alpha-beta plait domain
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: 230 aa     Download sequence    Send to blast
MEDNECRDGG KKLRRVLGAS RIWRRKENEC DEDDDWEYVE EGPTEIIWQG NEIIIRMKKV  60
RVLKKDANPL SKKEDVDRPT SNPLPPQSEA FADHQNAQQE LETIAQQVPN FGTEQDKVHC  120
PFHLKTGACW FGQRCSRVYF YPDKSCTLLI KNMHNGPGLA WEQDEGLEKW FFPLERGNIY  180
VHYKSLESAV LAYHSINGRY FAGKQVFVKN YWSLLSTLYL FVLYKVTTI*
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_024046556.11e-113LOW QUALITY PROTEIN: zinc finger CCCH domain-containing protein 5-like
SwissprotQ9SY743e-78C3H5_ARATH; Zinc finger CCCH domain-containing protein 5
TrEMBLV4SDX81e-172V4SDX8_9ROSI; Uncharacterized protein
STRINGXP_006423800.11e-173(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM59752025
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.11e-80C3H family protein
Publications ? help Back to Top
  1. Lorković ZJ,Wieczorek Kirk DA,Lambermon MH,Filipowicz W
    Pre-mRNA splicing in higher plants.
    Trends Plant Sci., 2000. 5(4): p. 160-7
    [PMID:10740297]
  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]