ViewGene
Locus Name:
GeneID:
Location:

GeneID:4160
TrivialName: PA14_64700
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_64700
PAO1 Ortholog Locus:PA4896
Sequence Length:537
Protein Length:178
Start: 5762586
Stop: 5762050
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08281.1|AE004902_9 (AE004902) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
Identities = 174/178 (97%), Positives = 175/178 (98%)
Sequence:
ATGAATGCGCCAAGCCCCTGCCTGCAAGCGGACCGCGACTGCGTCGCCACGCTCTACCGTGAAAACCATGCC
TGGTTGCGCAACTGGCTGGCCTACCGCCTTCGCTCCTGGGGACGTGGCGTGGCCGACGACCTGGCCCACGAC
ACTTTCCTGCGCATCCTCGCCAGCCGCGATGGCGGCCAGCGTGACGCGATCCGTCAGCCGCGCGCCTACCTC
ACCCGCATCGCCAACTGCGTGCTGGTCAGCTGGCGCCGTCGCCAATCGCTGGAACTCGCCTGGCTGGAGGCC
CTGGCCACGTTGCCCGAGCCGTTGCAGCCGTCGCCGGAACAACAGAGTGTGATCGTCGAGACCCTGCACGAG
ATCGACGCGCTGCTCGACACCCTGCGACCGCGGGTGAAACAGGCATTCCTGATGGCGACGCTGGACGGCATG
AAGCAGAAGGACATCGCCCAGGCGCTGGGCGTCGCGCTGCCGACGGTGAAGAAGTTCATCCACCAGGCCTAC
GTGACCTGCCTGAGCCTGATGCCCGATGAATGA
Translation:
MNAPSPCLQADRDCVATLYRENHAWLRNWLAYRLRSWGRGVADDLAHDTFLRILASRDGGQRDAIRQPRAYL
TRIANCVLVSWRRRQSLELAWLEALATLPEPLQPSPEQQSVIVETLHEIDALLDTLRPRVKQAFLMATLDGM
KQKDIAQALGVALPTVKKFIHQAYVTCLSLMPDE*
AnnotationID:4167GeneID:4160
AnnotatorUID: diggins
Modification Date/Time: 2005-03-11 13:01:22
Gene Name:
Confidence Code:3
GeneProduct:putative sigma-70 factor, ECF subfamily
Cell Localization:()
Synonyms:PA4896
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|CAE32401.1| (BX640442) Putative sigma-70 factor, ECF subfamily [Bordetella
           bronchiseptica]
          Length = 177

 Score =  212 bits (540), Expect = 7e-55
 Identities = 109/179 (60%), Positives = 132/179 (73%), Gaps = 3/179 (1%)

>emb|CAE37751.1| (BX640430) Putative sigma-70 factor, ECF subfamily [Bordetella
           parapertussis]
          Length = 177

 Score =  212 bits (540), Expect = 7e-55
 Identities = 109/179 (60%), Positives = 132/179 (73%), Gaps = 3/179 (1%)








 
Structural Features:
COG1595, RpoE, DNA-directed RNA polymerase specialized sigma subunit, 
sigma24 homolog [Transcription]
CD-Length = 182 residues,  93.4% aligned
Score =  101 bits (252), Expect = 5e-23
Identities = 49/174 (28%), Positives = 81/174 (46%), Gaps = 6/174 (3%)






   
Genomic Context:






   
Comment:


















    ReferenceID:8322




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:25464




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:35162




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4160_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:4160
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
6428
                           PA4896_tr
                           translation of PA4896
                           178
                           97.75
                           98.31
                           0
                           900.0
     

     
     
176056
                           gb|AAG08281.1|AE004902_9
                           (AE004902) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
                           178
                           97.75
                           98.31
                           0
                           900.0
     

     
     
176058
                           emb|CAE37751.1|
                           (BX640430) Putative sigma-70 factor, ECF subfamily [Bordetella parapertussis]
                           179
                           60.89
                           73.74
                           3
                           544.0
     

     
     
176057
                           emb|CAE32401.1|
                           (BX640442) Putative sigma-70 factor, ECF subfamily [Bordetella bronchiseptica] [Bordetella bronchiseptica RB50]
                           179
                           60.89
                           73.74
                           3
                           544.0
     

     
     
176060
                           emb|CAD85010.1|
                           (BX321859) Sigma factor, ECF subfamily [Nitrosomonas europaea ATCC 19718]
                           181
                           48.61
                           66.85
                           17
                           409.0
     

     






      

          
GC ORFID: 47162How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4896Glimmer Score: 

          
Start: 5026267Stop: 5025731

          
Length: 537


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4896 translation of PA4896Homolog Bit Score 351.0

          
Other Homologs:  t_PA1912 (ORF: BLASTX 159.0), psyr_15may02_Scaffold3_revised_gene5013 (ORF: BLASTX 130.0), t_PA3899 (ORF: BLASTX 128.0), psyr_15may02_Scaffold1_revised_gene1362 (ORF: BLASTX 127.0), t_PA0472 (ORF: BLASTX 118.0), psyr_15may02_Scaffold6_revised_gene6627 (ORF: BLASTX 110.0), t_PA4896 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAATGCGCCAAGCCCCTGCCTGCAAGCGGACCGCGACTGCGTCGCCACGCTCTACCGTGAAAACCATGCC 
TGGTTGCGCAACTGGCTGGCCTACCGCCTTCGCTCCTGGGGACGTGGCGTGGCCGACGACCTGGCCCACGAC 
ACTTTCCTGCGCATCCTCGCCAGCCGCGATGGCGGCCAGCGTGACGCGATCCGTCAGCCGCGCGCCTACCTC 
ACCCGCATCGCCAACTGCGTGCTGGTCAGCTGGCGCCGTCGCCAATCGCTGGAACTCGCCTGGCTGGAGGCC 
CTGGCCACGTTGCCCGAGCCGTTGCAGCCGTCGCCGGAACAACAGAGTGTGATCGTCGAGACCCTGCACGAG 
ATCGACGCGCTGCTCGACACCCTGCGACCGCGGGTGAAACAGGCATTCCTGATGGCGACGCTGGACGGCATG 
AAGCAGAAGGACATCGCCCAGGCGCTGGGCGTCGCGCTGCCGACGGTGAAGAAGTTCATCCACCAGGCCTAC 
GTGACCTGCCTGAGCCTGATGCCCGATGAATGA