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 Gorai.005G120000.1
Common NameB456_005G120000
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family C3H
Protein Properties Length: 267aa    MW: 31189.6 Da    PI: 4.8459
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.005G120000.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.25.3e-07219238625
                         -SGGGGTS--TTTTT-SS-S CS
             zf-CCCH   6 CrffartGtCkyGdrCkFaH 25 
                         C+f+++tG C++G rC++ H
  Gorai.005G120000.1 219 CPFHLKTGACRFGQRCSRVH 238
                         ******************99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010312.23213241IPR000571Zinc finger, CCCH-type
PfamPF006425.4E-5218238IPR000571Zinc finger, CCCH-type
PRINTSPR018489.1E-13219238IPR009145U2 auxiliary factor small subunit
PRINTSPR018489.1E-13238258IPR009145U2 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: 267 aa     Download sequence    Send to blast
MAEAEAAISK QEEGGQRDNH PMTKGRKEKR KEIKKMKRKQ LRKEAAEKER EAEEAWLNDP  60
EEQKRIAREE EEERKRRELA LREFEERERA WIEAMDIKRK AQEDEEEVEK RRDDSEDANG  120
EQRQQEDRGD DWEYVEDGPA EIIWQGNEII VRKKKVRAPK GEAIQKCKEE DADRPTSNPL  180
PPQSEAFSDY LNTSSAQEVL ESVAKEVPNF GTEQDKAHCP FHLKTGACRF GQRCSRVHFY  240
PDKSCTLLMR NMYNGPGLAL EQDEGLE
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
17277ERKRRE
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJX5860545e-63JX586054.1 Gossypium hirsutum clone NBRI_GE19787 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012478277.10.0PREDICTED: zinc finger CCCH domain-containing protein 5
SwissprotQ9SY741e-93C3H5_ARATH; Zinc finger CCCH domain-containing protein 5
TrEMBLA0A0D2RJN70.0A0A0D2RJN7_GOSRA; Uncharacterized protein (Fragment)
STRINGGorai.005G120000.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM59752025
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.16e-70C3H 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. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]
  3. 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]