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 orange1.1g026083m
Common NameCISIN_1g024141mg
Organism
Citrus sinensis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family C3H
Protein Properties Length: 244aa    MW: 28845.5 Da    PI: 10.3779
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
orange1.1g026083mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.44.3e-077194226
                       -S---SGGGGTS--TTTTT-SS-SS CS
            zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHg 26
                       +++ Cr + +  tC++G+ C+F+H 
  orange1.1g026083m 71 REATCRQYEE-NTCNRGGYCNFMHL 94
                       6789**9999.*************6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PRINTSPR018481.3E-232446IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549284.48E-102870IPR012677Nucleotide-binding alpha-beta plait domain
Gene3DG3DSA:3.30.70.3301.3E-92966IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018481.3E-235175IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010311.1226996IPR000571Zinc finger, CCCH-type
PfamPF006425.6E-57194IPR000571Zinc finger, CCCH-type
PRINTSPR018481.3E-238698IPR009145U2 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: 244 aa     Download sequence    Send to blast
MYQRLDMITP GVDAQGNPLD PRKIQEHFEV GNVYVQFREE EQAARALKSL SGRFYAGRPI  60
IVDFSPVTDF REATCRQYEE NTCNRGGYCN FMHLKRISRD LRRQLFGRYR RRHSRSRSRS  120
RSPYRHRSHE DRSHSGHGRR YDDRDKYYES RSRRHRSTSP SHRRGRSRSP GGRRYHSPVR  180
EGSEERRAKI EQWNREREQQ EEAYKGNTDG GNNDQGINND GLMQNGNGYH SYKQQPEQGG  240
NEY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A6e-2330111104185Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Csi.107353e-82callus| flower
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_006424345.11e-168splicing factor U2af small subunit A
SwissprotQ9ZQW85e-66U2AFA_ORYSJ; Splicing factor U2af small subunit A
TrEMBLA0A067DRZ51e-177A0A067DRZ5_CITSI; Uncharacterized protein
STRINGXP_006424345.11e-167(Citrus clementina)
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]