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 Bv6_140700_qxsy.t1
Organism
Beta vulgaris
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Chenopodiaceae; Betoideae; Beta
Family C3H
Protein Properties Length: 182aa    MW: 21210.3 Da    PI: 9.0912
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bv6_140700_qxsy.t1genomeTBVRView 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 + +  tC++G+ C+F+H 
  Bv6_140700_qxsy.t1 43 REATCRQYEE-NTCNRGGYCNFMHL 66
                        6789**9999.*************6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF549281.03E-8242IPR012677Nucleotide-binding alpha-beta plait domain
Gene3DG3DSA:3.30.70.3307.0E-8238IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018481.7E-152347IPR009145U2 auxiliary factor small subunit
PROSITE profilePS50103114168IPR000571Zinc finger, CCCH-type
PfamPF006423.7E-54366IPR000571Zinc finger, CCCH-type
PRINTSPR018481.7E-155870IPR009145U2 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: 182 aa     Download sequence    Send to blast
MVGNVYVQYR EKEQAANALR NLTGRFYSGR PIIVDFFPVT DFREATCRQY EENTCNRGGY  60
CNFMHLKKIN SYYESQSTRH RSSSPHKRGR SGSLGSRRDR SPIMEGSEER RAKIEQWNRE  120
KEEAEQAAKT QTDTGNNNDG YHNKAAPYGE DLKRTMVTSS QYHNVRRDMD IDQLMTCNWQ  180
SS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A4e-22168103170Splicing 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}.
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_010690014.16e-82PREDICTED: splicing factor U2af small subunit B
RefseqXP_010690015.16e-82PREDICTED: splicing factor U2af small subunit B
RefseqXP_010690016.16e-82PREDICTED: splicing factor U2af small subunit B
RefseqXP_010690017.16e-82PREDICTED: splicing factor U2af small subunit B
SwissprotQ9ZQW81e-36U2AFA_ORYSJ; Splicing factor U2af small subunit A
TrEMBLA0A2R6QT732e-59A0A2R6QT73_ACTCH; Splicing factor U2af small subunit A like
STRINGXP_010690014.12e-81(Beta vulgaris)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.12e-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]