PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID cra_locus_64661_iso_1
Organism
Catharanthus roseus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Apocynaceae; Rauvolfioideae; Vinceae; Catharanthinae; Catharanthus
Family C3H
Protein Properties Length: 117aa    MW: 13620.8 Da    PI: 9.8887
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
cra_locus_64661_iso_1genomeMPGR-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.34.6e-074871226
                                         -S---SGGGGTS--TTTTT-SS-SS CS
                              zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHg 26
                                         +++ Cr + +   C++G+ C+F+H 
  cra_locus_64661_iso_1_len_349_ver_3 48 REATCRQYEE-NVCNRGGYCNFMHL 71
                                         6789**9999.*************6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PRINTSPR018482.7E-28123IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3307.3E-9343IPR012677Nucleotide-binding alpha-beta plait domain
SuperFamilySSF549281.36E-8447IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018482.7E-282852IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010310.4654673IPR000571Zinc finger, CCCH-type
PfamPF006426.7E-54871IPR000571Zinc finger, CCCH-type
PRINTSPR018482.7E-286375IPR009145U2 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: 117 aa     Download sequence    Send to blast
NLADHMVGNV YVQFREEDHA QIALQNLMGR SYEGRPIIAD FSPVTDFREA TCRQYEENVC  60
NRGGYCNFMH LKKISRELRQ ELFRGRRGNG HSRSRSRSPR HRSYDDRPGS GRRGGDX
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A4e-2818798184Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
192101RSRSRSPRHR
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_019152704.11e-53PREDICTED: splicing factor U2af small subunit B-like
RefseqXP_019152712.11e-53PREDICTED: splicing factor U2af small subunit B-like
RefseqXP_019152722.11e-53PREDICTED: splicing factor U2af small subunit B-like
SwissprotQ9ZQW81e-46U2AFA_ORYSJ; Splicing factor U2af small subunit A
TrEMBLA0A4D8YZX31e-52A0A4D8YZX3_SALSN; Splicing factor U2AF 35 kDa subunit
STRINGGLYMA03G34840.19e-53(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA106155
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]