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 Do014210.1
Organism
Dichanthelium oligosanthes
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Dichantheliinae; Dichanthelium
Family C3H
Protein Properties Length: 187aa    MW: 22019.1 Da    PI: 10.9381
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Do014210.1genomeDichanView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.63.7e-074366226
                -S---SGGGGTS--TTTTT-SS-SS CS
     zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHg 26
                +++ Cr f +   C++G+ C+F+H+
  Do014210.1 43 REATCRQFEE-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:3.30.70.3301.4E-9238IPR012677Nucleotide-binding alpha-beta plait domain
SuperFamilySSF549283.53E-10342IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018481.3E-162347IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010311.8924168IPR000571Zinc finger, CCCH-type
PfamPF006424.1E-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: 187 aa     Download sequence    Send to blast
MIGNVYVQFR EEEQAAAAYN ALQGRYYSGR PIIVEYSPVT DFREATCRQF EENSCNRGGY  60
CNFMHVKQIG RDLRRKIYGR SASRRYHGRS RSRSPPPQRR APPRDRDDYH RDRDDRGGGR  120
GRGSRHDRYD DGGGRGGRHD RHDRYDDGGR RRHGSPPPRR GRSPVRESSE ERRAKIEQWN  180
REREAKQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A1e-22183103192Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtNecessary for the splicing of pre-mRNA. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapDo014210.1
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJF9448130.0JF944813.1 Setaria italica SiU2af35 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001150605.13e-98splicing factor U2af 38 kDa subunit
RefseqXP_008654952.14e-98splicing factor U2af 38 kDa subunit isoform X1
RefseqXP_008668072.13e-98splicing factor U2af 38 kDa subunit isoform X1
RefseqXP_020397717.14e-98splicing factor U2af 38 kDa subunit isoform X1
RefseqXP_020397718.14e-98splicing factor U2af 38 kDa subunit isoform X1
RefseqXP_020403370.13e-98splicing factor U2af 38 kDa subunit isoform X1
SwissprotQ9ZQW82e-56U2AFA_ORYSJ; Splicing factor U2af small subunit A
TrEMBLA0A1E5VIK91e-129A0A1E5VIK9_9POAL; Splicing factor U2af small subunit B
STRINGGRMZM2G025014_P021e-97(Zea mays)
STRINGGRMZM2G031827_P041e-97(Zea mays)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.12e-10C3H 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]