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 Ciclev10029077m
Common NameCICLE_v10029043mg
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: 266aa    MW: 31476.3 Da    PI: 9.631
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10029077mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.34.8e-0793116226
                      -S---SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                      +++ Cr + +  tC++G+ C+F+H 
  Ciclev10029077m  93 REATCRQYEE-NTCNRGGYCNFMHL 116
                      6789**9999.*************6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.70.3304.9E-14188IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS501028.859589IPR000504RNA recognition motif domain
PRINTSPR018486.6E-182136IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549283.66E-122792IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018486.6E-187397IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010311.12291118IPR000571Zinc finger, CCCH-type
PfamPF006426.3E-593116IPR000571Zinc finger, CCCH-type
PRINTSPR018486.6E-18108120IPR009145U2 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: 266 aa     Download sequence    Send to blast
MYQRLDMITP GVDAQGNPLD PRKIQEHFED FYEDLFEELN KYGEIESLNI CDNLADHMFR  60
EEEQAARALK SLSGRFYAGR PIIVDFSPVT DFREATCRQY EENTCNRGGY CNFMHLKRIS  120
RDLRRQLFGR YRRRHSRSRS RSRSPYRHRS HEDRSHSGHG RRYDDRDKYY ESRSRRHRST  180
SPSHRRGRSR SPGGRRNRSP VREGSEERRA KIEQWNRERE QQEEAYKGNT DGGNNDQGIN  240
NDGLMQNGSG YHSYKLQPEQ GGNEY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A1e-341013355185Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Ccl.81440.0fruit
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_006424345.11e-165splicing factor U2af small subunit A
SwissprotQ9ZQW84e-85U2AFA_ORYSJ; Splicing factor U2af small subunit A
TrEMBLV4SKI10.0V4SKI1_9ROSI; Uncharacterized protein
STRINGXP_006424345.11e-165(Citrus clementina)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.19e-11C3H 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]