ViewGene
Locus Name:
GeneID:
Location:

GeneID:6171
TrivialName: PA14_27690
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_27690
PAO1 Ortholog Locus:
Sequence Length:594
Protein Length:197
Start: 2401672
Stop: 2401079
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAN62221.1|AF440524_8 (AF440524) putative RNA polymerase sigma factor [Pseudomonas aeruginosa]
Identities = 197/197 (100%), Positives = 197/197 (100%)
Sequence:
ATGGATCGTCCGAATCAGCCAGGCGGCAACGAAACCGGTTCCGATCGCCTGTTCGAGGAAAGCTGGCGTGCC
GCGCAGGCTGGCCTGCGCAAACGCGCACAACGCCTTGCGCGCGGCAACAGCCATCGGGCCGAAGAATGGCTG
TCGAGCACCGCGGTCAAGGCGCTGCTGTTCCTGCGCCAGTCACCGGAGCGGGTACGCGACCCCCAGGGCTTC
CTGTTCCTGGTCCTGGAACACGTCTACCTGGACAGCGCGCGCCACCAGATCCGCGAGGACCGCCTCATCGAC
CGCGGCATCGACCTGCACGATGGCCAGTTGGAGCGCTTCGCCGCCGTCGGCTCGCCGCTGGAACGCCTGGAG
CAGCTGGAACGTCTCGACCAGGTGGACAAGGCCCTGGCCTCGCTGTCGCGCCAACAGCAGCAGCTCTTCGAA
CTGCGCTTCATCGAGGAACTGCCCTATGCCGACATCGCCAGCCAGCTCGGCATAGCCCCGCCGCTGGTGCGC
AAGCGCGTGCAGTTGCTGCGCTCGCGGCTGAGCGCCGACTTTTTCGCCGGCGACGTTTCACAAGACAGACGC
AGCCGCGTTCATTCCTGA
Translation:
MDRPNQPGGNETGSDRLFEESWRAAQAGLRKRAQRLARGNSHRAEEWLSSTAVKALLFLRQSPERVRDPQGF
LFLVLEHVYLDSARHQIREDRLIDRGIDLHDGQLERFAAVGSPLERLEQLERLDQVDKALASLSRQQQQLFE
LRFIEELPYADIASQLGIAPPLVRKRVQLLRSRLSADFFAGDVSQDRRSRVHS*
AnnotationID:6172GeneID:6171
AnnotatorUID: danlee
Modification Date/Time: 2005-10-13 15:03:23
Gene Name:
Confidence Code:3
GeneProduct:putative RNA polymerase sigma factor
Cell Localization:()
Synonyms:fecI
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(24) Transcription, RNA processing and degradation
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
gi|24461652|gb|AAN62221.1|  putative RNA polymerase sigma factor [Pseudomonas aeruginosa]
gi|24461641|gb|AAN62212.1|  putative RNA polymerase sigma factor [Pseudomonas aeruginosa]
     Length=197
     Score =  386 bits (991),  Expect = 2e-106
     Identities = 197/197 (100%), Positives = 197/197 (100%), Gaps = 0/197 (0%)

gi|74016183|ref|ZP_00686810.1|  conserved hypothetical protein [Burkholderia ambifaria AMMD]
gi|72611612|gb|EAO47557.1|  conserved hypothetical protein [Burkholderia ambifaria AMMD]
     Length=185
     Score =  132 bits (331),  Expect = 8e-30
     Identities = 70/161 (43%), Positives = 106/161 (65%), Gaps = 1/161 (0%)






 
Structural Features:
COG1595, RpoE, DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription].
             CD-Length = 182 residues,  87.9% aligned
             Score = 45.5 bits (107), Expect = 4e-06






   
Genomic Context:






   
Comment:
Corresponds to fecI of P. aeruginosa strains SG17M and Clone C strain C.


















    ReferenceID:12198




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:29459




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36239




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:6171_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:6171
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
198604
                           gb|AAN62221.1|AF440524_8
                           (AF440524) putative RNA polymerase sigma factor [Pseudomonas aeruginosa]
                           197
                           99.99
                           99.99
                           0
                           991.0
     

     
     
198605
                           gb|AAN62212.1|AF440523_119
                           (AF440523) putative RNA polymerase sigma factor [Pseudomonas aeruginosa]
                           197
                           99.99
                           99.99
                           0
                           991.0
     

     
     
198606
                           gb|AAQ58413.1|
                           (AE016912) conserved hypothetical protein [Chromobacterium violaceum ATCC 12472]
                           222
                           34.68
                           51.80
                           39
                           325.0
     

     






      

          
GC ORFID: 49173How Found: Glimmer

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: Glimmer Score: 

          
Start: 2552255Stop: 2552848

          
Length: 594


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: Homolog Bit Score 

          
Other Homologs:  

          
GC ORF Sequence

           
ATGGATCGTCCGAATCAGCCAGGCGGCAACGAAACCGGTTCCGATCGCCTGTTCGAGGAAAGCTGGCGTGCC 
GCGCAGGCTGGCCTGCGCAAACGCGCACAACGCCTTGCGCGCGGCAACAGCCATCGGGCCGAAGAATGGCTG 
TCGAGCACCGCGGTCAAGGCGCTGCTGTTCCTGCGCCAGTCACCGGAGCGGGTACGCGACCCCCAGGGCTTC 
CTGTTCCTGGTCCTGGAACACGTCTACCTGGACAGCGCGCGCCACCAGATCCGCGAGGACCGCCTCATCGAC 
CGCGGCATCGACCTGCACGATGGCCAGTTGGAGCGCTTCGCCGCCGTCGGCTCGCCGCTGGAACGCCTGGAG 
CAGCTGGAACGTCTCGACCAGGTGGACAAGGCCCTGGCCTCGCTGTCGCGCCAACAGCAGCAGCTCTTCGAA 
CTGCGCTTCATCGAGGAACTGCCCTATGCCGACATCGCCAGCCAGCTCGGCATAGCCCCGCCGCTGGTGCGC 
AAGCGCGTGCAGTTGCTGCGCTCGCGGCTGAGCGCCGACTTTTTCGCCGGCGACGTTTCACAAGACAGACGC 
AGCCGCGTTCATTCCTGA