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 Sof005676
Organism
Saccharum officinarum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Saccharinae; Saccharum; Saccharum officinarum complex
Family C3H
Protein Properties Length: 115aa    MW: 13208.3 Da    PI: 4.7244
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
gnl|UG|Sof#S17300291PU_unrefUnigeneView CDS
PUT-157a-Saccharum_officinarum-122351PU_refplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH322.1e-101438226
               -S---SGGGGTS--TTTTT-SS-SS CS
    zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHg 26
               ++++C+f+++ G C++GdrC++ H 
  Sof005676 14 DRVNCPFYFKIGACRHGDRCSRLHN 38
               6899********************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.0471240IPR000571Zinc finger, CCCH-type
SMARTSM003560.00551339IPR000571Zinc finger, CCCH-type
PfamPF006425.3E-81438IPR000571Zinc finger, CCCH-type
PRINTSPR018485.2E-371837IPR009145U2 auxiliary factor small subunit
PRINTSPR018485.2E-373757IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3302.0E-1244114IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018485.2E-377590IPR009145U2 auxiliary factor small subunit
PRINTSPR018485.2E-37103115IPR009145U2 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: 115 aa     Download sequence    Send to blast
MAEHLASIFG TEKDRVNCPF YFKIGACRHG DRCSRLHNKP SISPTLLLCN MYQRPDMITP  60
GVDAQGNPID PERIQEDFED FYQDIFEELN KHGEIESXHV CDNLADHMIG NVYVX
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A5e-3911141109Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sof.104500.0callus| crown| stem
Functional Description ? help Back to Top
Source Description
UniProtNecessary for the splicing of pre-mRNA. {ECO:0000250}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021307907.16e-79splicing factor U2af small subunit A-like
RefseqXP_021307908.16e-79splicing factor U2af small subunit A-like
RefseqXP_021307909.16e-79splicing factor U2af small subunit A-like
RefseqXP_021307910.16e-79splicing factor U2af small subunit A-like
SwissprotQ9ZQW83e-74U2AFA_ORYSJ; Splicing factor U2af small subunit A
TrEMBLA0A1B6QDD41e-77A0A1B6QDD4_SORBI; Uncharacterized protein
STRINGPavir.J34580.1.p7e-80(Panicum virgatum)
STRINGSb02g028540.22e-78(Sorghum bicolor)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G44785.15e-31C3H 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]