ViewGene
Locus Name:
GeneID:
Location:

GeneID:4147
TrivialName: PA14_47400
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_47400
PAO1 Ortholog Locus:PA1300
Sequence Length:528
Protein Length:175
Start: 4224685
Stop: 4224158
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG04689.1|AE004559_8 (AE004559) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
Identities = 175/175 (100%), Positives = 175/175 (100%)
Sequence:
ATGGATGAGCGCTTCCGTGGTTCCGTCTCGCATGCCTATCAGGCGTTCCATGGCGAGTTGCTGCGCTTCCTG
CGCAAGCACCTGGGCAGTTCGGCGGACGCCGCCGACCTCGCCCAGGATACTTTCGCCCAGTGGCTGAAATGG
CCGGGCCGGCAATCGGTCGAGCAGCCGCGCGCATTTCTTTTCCAGATCGCCCGCAACCTGTTGCGCGACCAT
TGGCGCCGGCAGCAGAGCCGCGGCCAGGATCTCGACCGGCCGGCGGCGAACGACGAACCCGCCGCGCTGGAA
GGCGAGGCGGCCGGGCCGGGCGAGCGTTTCGAACAGCAGCAGCGCCTCAGCCACCTGGCGGCCGCGCTGGCC
GAGCTGCCGCCGCGGCGGCGCGAAGCGTTCGTCCTGCACAAGTTCGACGGCCTGTCCCAGGTCGAAGTGGCC
GAGCGCATGGGAATCTCCCTGAGCATGGTGGAAAAGCACATCGCCAGCGCCTTGCTGCACTGCAAGCGGCGG
CTTGGCCAGGGAGGCGAAGGATGA
Translation:
MDERFRGSVSHAYQAFHGELLRFLRKHLGSSADAADLAQDTFAQWLKWPGRQSVEQPRAFLFQIARNLLRDH
WRRQQSRGQDLDRPAANDEPAALEGEAAGPGERFEQQQRLSHLAAALAELPPRRREAFVLHKFDGLSQVEVA
ERMGISLSMVEKHIASALLHCKRRLGQGGEG*
AnnotationID:4154GeneID:4147
AnnotatorUID: diggins
Modification Date/Time: 2005-02-22 20:08:30
Gene Name:
Confidence Code:3
GeneProduct:putative sigma-70 factor, ECF subfamily
Cell Localization:()
Synonyms:PA1300
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG1595
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>emb|CAE34483.1| (BX640449) ECF-family sigma factor [Bordetella bronchiseptica]
          Length = 162

 Score =  118 bits (295), Expect = 2e-26
 Identities = 68/157 (43%), Positives = 100/157 (63%), Gaps = 6/157 (3%)

>gb|AAN65795.1|AE016207_2 (AE016774) RNA polymerase sigma-70 factor, ECF subfamily
           [Pseudomonas putida KT2440]
          Length = 173

 Score =  104 bits (259), Expect = 3e-22
 Identities = 65/158 (41%), Positives = 89/158 (56%), Gaps = 5/158 (3%)






 
Structural Features:
COG1595, RpoE, DNA-directed RNA polymerase specialized sigma subunit, 
sigma24 homolog [Transcription]
CD-Length = 182 residues,  94.5% aligned
Score =  110 bits (277), Expect = 6e-26
Identities = 55/175 (31%), Positives = 85/175 (48%), Gaps = 4/175 (2%)







   
Genomic Context:






   
Comment:


















    ReferenceID:8296




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:25439




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37477




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4147_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:4147
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
6403
                           PA1300_tr
                           translation of PA1300
                           175
                           99.99
                           99.99
                           0
                           907.0
     

     
     
175500
                           gb|AAG04689.1|AE004559_8
                           (AE004559) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
                           175
                           99.99
                           99.99
                           0
                           907.0
     

     
     
175502
                           emb|CAE38969.1|
                           (BX640434) ECF-family sigma factor [Bordetella parapertussis]
                           179
                           38.54
                           56.42
                           21
                           299.0
     

     
     
175501
                           emb|CAE34483.1|
                           (BX640449) ECF-family sigma factor [Bordetella bronchiseptica] [Bordetella bronchiseptica RB50]
                           179
                           38.54
                           56.42
                           21
                           299.0
     

     
     
175504
                           gb|AAG05775.1|AE004665_2
                           (AE004665) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
                           177
                           38.41
                           54.80
                           20
                           265.0
     

     






      

          
GC ORFID: 47149How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1300Glimmer Score: 

          
Start: 729224Stop: 729751

          
Length: 528


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1300 translation of PA1300Homolog Bit Score 353.0

          
Other Homologs:  t_PA2387 (ORF: BLASTX 105.0), t_PA2468 (ORF: BLASTX 103.0), t_PA1300 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGATGAGCGCTTCCGTGGTTCCGTCTCGCATGCCTATCAGGCGTTCCATGGCGAGTTGCTGCGCTTCCTG 
CGCAAGCACCTGGGCAGTTCGGCGGACGCCGCCGACCTCGCCCAGGATACTTTCGCCCAGTGGCTGAAATGG 
CCGGGCCGGCAATCGGTCGAGCAGCCGCGCGCATTTCTTTTCCAGATCGCCCGCAACCTGTTGCGCGACCAT 
TGGCGCCGGCAGCAGAGCCGCGGCCAGGATCTCGACCGGCCGGCGGCGAACGACGAACCCGCCGCGCTGGAA 
GGCGAGGCGGCCGGGCCGGGCGAGCGTTTCGAACAGCAGCAGCGCCTCAGCCACCTGGCGGCCGCGCTGGCC 
GAGCTGCCGCCGCGGCGGCGCGAAGCGTTCGTCCTGCACAAGTTCGACGGCCTGTCCCAGGTCGAAGTGGCC 
GAGCGCATGGGAATCTCCCTGAGCATGGTGGAAAAGCACATCGCCAGCGCCTTGCTGCACTGCAAGCGGCGG 
CTTGGCCAGGGAGGCGAAGGATGA