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 Cre06.g250950.t1.2
Common NameCHLREDRAFT_142476
Organism
Chlamydomonas reinhardtii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Chlorophyta; Chlorophyceae; Chlamydomonadales; Chlamydomonadaceae; Chlamydomonas
Family C3H
Protein Properties Length: 274aa    MW: 31462.9 Da    PI: 9.2296
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cre06.g250950.t1.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH29.99.6e-101438226
                        -S---SGGGGTS--TTTTT-SS-SS CS
             zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHg 26
                        ++++C+f+++ G C++GdrC++ H 
  Cre06.g250950.t1.2 14 DRVNCPFYFKIGACRHGDRCSRLHN 38
                        6899********************7 PP
2zf-CCCH21.25e-07151174226
                         -S---SGGGGTS--TTTTT-SS-SS CS
             zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                         +++ Cr + +  tC++G+ C+F+H 
  Cre06.g250950.t1.2 151 REATCRQYEE-NTCNRGGYCNFMHL 174
                         6789**9999.*************6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.0651240IPR000571Zinc finger, CCCH-type
SMARTSM003560.00681339IPR000571Zinc finger, CCCH-type
PfamPF006422.5E-71438IPR000571Zinc finger, CCCH-type
PRINTSPR018481.3E-611837IPR009145U2 auxiliary factor small subunit
PRINTSPR018481.3E-613757IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3301.9E-2144146IPR012677Nucleotide-binding alpha-beta plait domain
CDDcd125396.99E-6944146No hitNo description
PROSITE profilePS501029.98565147IPR000504RNA recognition motif domain
SMARTSM003613.7E-768143IPR003954RNA recognition motif domain, eukaryote
PRINTSPR018481.3E-617691IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549284.89E-1677150IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018481.3E-61104126IPR009145U2 auxiliary factor small subunit
PRINTSPR018481.3E-61131155IPR009145U2 auxiliary factor small subunit
SMARTSM003560.13149175IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.554149176IPR000571Zinc finger, CCCH-type
PfamPF006426.6E-5151174IPR000571Zinc finger, CCCH-type
PRINTSPR018481.3E-61166178IPR009145U2 auxiliary factor small subunit
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000398Biological ProcessmRNA splicing, via spliceosome
GO:0048573Biological Processphotoperiodism, flowering
GO:0089701Cellular ComponentU2AF
GO:0000166Molecular Functionnucleotide binding
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 274 aa     Download sequence    Send to blast
MAEHLASIFG TEKDRVNCPF YFKIGACRHG DRCSRLHNRP TISPTILMAN MYQNPLLNAP  60
LGPDGLPIRV DPRAAQEHFE DFYEDVFEEL AAHGELENLN VCDNFADHMV GNVYAKFRDE  120
DAAARALTAL QGRYYDGRPI IVEFSPVTDF REATCRQYEE NTCNRGGYCN FMHLKPISRE  180
LRKKLFGRYK RRERSRSPRR DRGDRGDRGD RRERDRDWDR GDRDRGRGRS RSRSRERGGG  240
DRRRETSEER RAKIAAWNTE RDGSAGGGGG GGW*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A2e-6812051206Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1226236RGRSRSRSRER
2228236RSRSRSRER
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Cre.29590.0normal conditions| nutrient deficiency
Functional Description ? help Back to Top
Source Description
UniProtNecessary for the splicing of pre-mRNA. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCre06.g250950.t1.2
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_001696419.10.0U2 snRNP auxiliary factor, small subunit
SwissprotQ9ZQW81e-107U2AFA_ORYSJ; Splicing factor U2af small subunit A
TrEMBLA8HYQ90.0A8HYQ9_CHLRE; U2 snRNP auxiliary factor, small subunit
STRINGEDP083960.0(Chlamydomonas reinhardtii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
ChlorophytaeOGCP204022
Representative plantOGRP157633
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.19e-37C3H 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. Merchant SS, et al.
    The Chlamydomonas genome reveals the evolution of key animal and plant functions.
    Science, 2007. 318(5848): p. 245-50
    [PMID:17932292]
  3. 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]