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 Lj0g3v0180079.1
Organism
Lotus japonicus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus
Family C3H
Protein Properties Length: 153aa    MW: 17949.9 Da    PI: 11.7615
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lj0g3v0180079.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH222.8e-074366226
                     -S---SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHg 26
                     +++ Cr + +   C++G+ C+F+H+
  Lj0g3v0180079.1 43 REATCRQYEE-NSCNRGGYCNFMHV 66
                     6789**9999.*************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.70.3308.2E-10238IPR012677Nucleotide-binding alpha-beta plait domain
SuperFamilySSF549282.58E-10342IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018481.3E-162347IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010311.4984168IPR000571Zinc finger, CCCH-type
PfamPF006423.4E-54367IPR000571Zinc finger, CCCH-type
PRINTSPR018481.3E-165870IPR009145U2 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: 153 aa     Download sequence    Send to blast
MIGNVYVQFR EEDEAAKALA ALHGRFYSGR PIIAEFSPVT DFREATCRQY EENSCNRGGY  60
CNFMHVKLIG RDLRRKLFSS HSFRIRSRSP VRRSRSRSPP RRRGSMDRER RHRDRDYDSR  120
GRRSSDRRSS DRDGGGRRRH GGSPAREGSE ERQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A4e-241112103216Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Lja.8170.0cell culture| pod| protoplast| root
Functional Description ? help Back to Top
Source Description
UniProtNecessary for the splicing of pre-mRNA. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLj0g3v0180079.1
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009417288.29e-52PREDICTED: splicing factor U2af small subunit B-like
RefseqXP_018674048.19e-52PREDICTED: splicing factor U2af small subunit B-like
RefseqXP_018674049.19e-52PREDICTED: splicing factor U2af small subunit B-like
SwissprotQ9ZQW83e-45U2AFA_ORYSJ; Splicing factor U2af small subunit A
TrEMBLA0A1D1Z0R27e-52A0A1D1Z0R2_9ARAE; Splicing factor U2af small subunit A
STRINGOMERI01G22740.13e-49(Oryza meridionalis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF2189333
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.18e-08C3H 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]