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 Sopen01g045510.1
Organism
Solanum pennellii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family C3H
Protein Properties Length: 285aa    MW: 33425.3 Da    PI: 4.7619
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sopen01g045510.1genomespennView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH25.13.1e-08235254625
                       -SGGGGTS--TTTTT-SS-S CS
           zf-CCCH   6 CrffartGtCkyGdrCkFaH 25 
                       C+f+++tG C++G+rC++ H
  Sopen01g045510.1 235 CPFHLKTGACRFGSRCSRVH 254
                       ******************99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010312.671229257IPR000571Zinc finger, CCCH-type
PfamPF006423.8E-6234254IPR000571Zinc finger, CCCH-type
PRINTSPR018484.2E-12235254IPR009145U2 auxiliary factor small subunit
PRINTSPR018484.2E-12254274IPR009145U2 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:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 285 aa     Download sequence    Send to blast
MTEPISVEED DKQATGLRRC VEPISSAAAE VQICNNRKEK RKLTKKEKRK QKRKELAEKA  60
RQEEEAKLND PEELRRIQLE EEEEKERLER ERREFEERER LFLEALARKE AQEVEEEERR  120
RVEDEEEKAK QSQVALENEP YEDDEWEYVE DGPPEIIWQG NEIIVKRNKV KVKKKDQDPV  180
IVKEDPNRPT SNPLAPQSEV YADYRNASSL SAQQLLENVA VQTPNFGTEQ DKAHCPFHLK  240
TGACRFGSRC SRVHFYPDKS CTLLMKNMYC GPGFAWEQDE GLEVC
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
14452KKEKRKQKR
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754400.0HG975440.1 Solanum pennellii chromosome ch01, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015062651.10.0zinc finger CCCH domain-containing protein 5
SwissprotQ9SY746e-83C3H5_ARATH; Zinc finger CCCH domain-containing protein 5
TrEMBLM1BUU91e-138M1BUU9_SOLTU; Uncharacterized protein
STRINGSolyc01g103090.2.11e-144(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA818966
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.12e-57C3H family protein
Publications ? help Back to Top
  1. Lorković ZJ,Wieczorek Kirk DA,Lambermon MH,Filipowicz W
    Pre-mRNA splicing in higher plants.
    Trends Plant Sci., 2000. 5(4): p. 160-7
    [PMID:10740297]
  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]