ViewGene
Locus Name:
GeneID:
Location:

GeneID:4410
TrivialName: PA14_33800
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_33800
PAO1 Ortholog Locus:PA2387
Sequence Length:480
Protein Length:159
Start: 3002922
Stop: 3003401
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05775.1|AE004665_2 (AE004665) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
Identities = 159/159 (100%), Positives = 159/159 (100%)
Sequence:
TTGGAAAACCATTATCGGGAGCTGCTGCGATTCCTCAGTGCCAGGCTCGGGGATCGACACGCAGCGGCGGAT
GTCGCCCACGACGCGTATTTGCGCGTTCTGGAGCGCTCCAGTCAAGCGCAGATCGAGCATCCGAAGGCTTTT
CTGTACCGGACGGCGCTCAACCTGGCGGTGGACGAGCACCGTCGCAGCCGGGTGCGCCGGGCGGAACCCCTG
GAGGTCCTGGACGACGAGGAGGGCCTGGCCAGTCCCTCGCCGCAGACGGTGGTCGACCAGGGGCAGCGCCTG
GACAACCTGCAGCGCGCGCTGGCCGAGTTGCCGGCCATCTGCCGCAGTTCGTTCCTGTTGCGCAAGCTGGAC
GGCCTGTCCCATTCGCAGATCGCCGAACATCTCAATATTTCCCGCAGCCTGGTGGAAAAGCACATCGTCAAC
GCGATGAAGCACTGTCGGGTGCGCATGCGCGAATGGGAAGCCGACTGA
Translation:
MENHYRELLRFLSARLGDRHAAADVAHDAYLRVLERSSQAQIEHPKAFLYRTALNLAVDEHRRSRVRRAEPL
EVLDDEEGLASPSPQTVVDQGQRLDNLQRALAELPAICRSSFLLRKLDGLSHSQIAEHLNISRSLVEKHIVN
AMKHCRVRMREWEAD*
AnnotationID:4416GeneID:4410
AnnotatorUID: diggins
Modification Date/Time: 2005-03-06 08:08:14
Gene Name:
Confidence Code:3
GeneProduct:putative sigma-70 factor, ECF subfamily
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:putative RNA polymerase sigma-70 factor
Functional Category Confidence Code:5
COGs:COG1595
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN69789.1|AE016615_5 (AE016789) RNA polymerase sigma-70 factor, ECF subfamily
           [Pseudomonas putida KT2440]
          Length = 158

 Score =  212 bits (540), Expect = 6e-55
 Identities = 109/158 (68%), Positives = 124/158 (78%)

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

 Score =  148 bits (374), Expect = 1e-35
 Identities = 73/157 (46%), Positives = 102/157 (64%)








 
Structural Features:
COG1595, RpoE, DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog 
[Transcription]
CD-Length = 182 residues,  88.5% aligned
Score = 93.2 bits (231), Expect = 1e-20
Identities = 59/161 (36%), Positives = 81/161 (50%), Gaps = 2/161 (1%)








   
Genomic Context:






   
Comment:


















    ReferenceID:15082




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:25964




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32939




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4410_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:4410
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
6747
                           PA2387_tr
                           translation of PA2387
                           159
                           99.99
                           99.99
                           0
                           806.0
     

     
     
180986
                           gb|AAG05775.1|AE004665_2
                           (AE004665) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
                           159
                           99.37
                           99.99
                           0
                           804.0
     

     
     
180987
                           gb|AAN69789.1|AE016615_5
                           (AE016789) RNA polymerase sigma-70 factor, ECF subfamily [Pseudomonas putida KT2440]
                           159
                           67.92
                           77.98
                           1
                           537.0
     

     
     
180988
                           emb|CAE34483.1|
                           (BX640449) ECF-family sigma factor [Bordetella bronchiseptica] [Bordetella bronchiseptica RB50]
                           162
                           45.67
                           64.19
                           3
                           370.0
     

     
     
180989
                           emb|CAE38969.1|
                           (BX640434) ECF-family sigma factor [Bordetella parapertussis]
                           162
                           45.67
                           64.19
                           3
                           370.0
     

     






      

          
GC ORFID: 47412How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA2387Glimmer Score: 

          
Start: 1950994Stop: 1950515

          
Length: 480


          
Start Codon: TTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA2387 translation of PA2387Homolog Bit Score 315.0

          
Other Homologs:  t_PA2387 (ORF: GLIMMER)

          
GC ORF Sequence

           
TTGGAAAACCATTATCGGGAGCTGCTGCGATTCCTCAGTGCCAGGCTCGGGGATCGACACGCAGCGGCGGAT 
GTCGCCCACGACGCGTATTTGCGCGTTCTGGAGCGCTCCAGTCAAGCGCAGATCGAGCATCCGAAGGCTTTT 
CTGTACCGGACGGCGCTCAACCTGGCGGTGGACGAGCACCGTCGCAGCCGGGTGCGCCGGGCGGAACCCCTG 
GAGGTCCTGGACGACGAGGAGGGCCTGGCCAGTCCCTCGCCGCAGACGGTGGTCGACCAGGGGCAGCGCCTG 
GACAACCTGCAGCGCGCGCTGGCCGAGTTGCCGGCCATCTGCCGCAGTTCGTTCCTGTTGCGCAAGCTGGAC 
GGCCTGTCCCATTCGCAGATCGCCGAACATCTCAATATTTCCCGCAGCCTGGTGGAAAAGCACATCGTCAAC 
GCGATGAAGCACTGTCGGGTGCGCATGCGCGAATGGGAAGCCGACTGA