ViewGene
Locus Name:
GeneID:
Location:

GeneID:5393
TrivialName: PA14_49410
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_49410
PAO1 Ortholog Locus:PA1159
Sequence Length:210
Protein Length:69
Start: 4391240
Stop: 4391031
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG04548.1|AE004546_3 (AE004546) probable cold-shock protein [Pseudomonas aeruginosa PAO1]
Identities = 69/69 (100%), Positives = 69/69 (100%)
Sequence:
ATGGCTGATCGTGAGGTCGGAACCGTCAAGTGGTTCAATGACGCCAAAGGTTATGGATTCATTCAACGCGAT
AGCGGTCCGGACGTGTTCGTTCACTACCGCGCCATCCGCGGCGAGGGTCACCGCTCCCTGGTGGAAGGCCAG
AAAGTGGAATTCTCGGTGATCCAGGGCCAGAAAGGCCTGCAAGCGGAAGACGTCTCCAAGGTCTGA
Translation:
MADREVGTVKWFNDAKGYGFIQRDSGPDVFVHYRAIRGEGHRSLVEGQKVEFSVIQGQKGLQAEDVSKV*
AnnotationID:5398GeneID:5393
AnnotatorUID: danlee
Modification Date/Time: 2004-09-14 16:04:43
Gene Name:
Confidence Code:3
GeneProduct:probable cold-shock protein
Cell Localization:(1) Cytoplasmic
Synonyms:PA1159
Cell Localization Confidence Code:2
MolecularFunction:
Functional Category:(1) Adaptation, protection
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:pfam00313, smart00357
Secondary Functional Category(ies):Transcriptional regulators
EC Number:
Status:ACTIVE
Pathway:






 
Homology:






 
Structural Features:
pfam00313, CSD, 'Cold-shock' DNA-binding domain. Score: 88.7, 1e-19
smart00357, CSP, Cold shock protein domain; RNA-binding domain. Score: 53.7, 5e-0






   
Genomic Context:






   
Comment:


















    ReferenceID:10784




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:27933




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:5393
           
Identity:

                               
                                   0%
                               
                                   10%
                               
                                   20%
                               
                                   30%
                               
                                   40%
                               
                                   50%
                               
                                   60%
                               
                                   70%
                               
                                   80%
                               
                                   90%
                               
                                   100%
                               
                             

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7788
                           PA1159_tr
                           translation of PA1159
                           69
                           99.99
                           99.99
                           0
                           360.0
     

     
     
196395
                           gb|AAG04548.1|AE004546_3
                           (AE004546) probable cold-shock protein [Pseudomonas aeruginosa PAO1]
                           69
                           99.99
                           99.99
                           0
                           360.0
     

     
     
196396
                           gb|AAN67143.1|AE016343_3
                           (AE016779) cold shock protein CspA [Pseudomonas putida KT2440]
                           69
                           76.81
                           88.40
                           0
                           292.0
     

     
     
196397
                           gb|AAO57443.1|
                           (AE016870) cold shock domain family protein [Pseudomonas syringae pv. tomato str. DC3000]
                           73
                           67.12
                           78.08
                           4
                           266.0
     

     
     
196402
                           gb|AAM41566.1|
                           (AE012336) major cold shock protein [Xanthomonas campestris pv. campestris str. ATCC 33913]
                           69
                           65.21
                           81.15
                           0
                           249.0
     

     






      

          
GC ORFID: 48395How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1159Glimmer Score: 

          
Start: 562668Stop: 562877

          
Length: 210


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1159 translation of PA1159Homolog Bit Score 143.0

          
Other Homologs:  t_PA0961 (ORF: BLASTX 101.0), psyr_15may02_Scaffold3_revised_gene4968 (ORF: BLASTX 100.0), t_PA1159 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCTGATCGTGAGGTCGGAACCGTCAAGTGGTTCAATGACGCCAAAGGTTATGGATTCATTCAACGCGAT 
AGCGGTCCGGACGTGTTCGTTCACTACCGCGCCATCCGCGGCGAGGGTCACCGCTCCCTGGTGGAAGGCCAG 
AAAGTGGAATTCTCGGTGATCCAGGGCCAGAAAGGCCTGCAAGCGGAAGACGTCTCCAAGGTCTGA