ViewGene
Locus Name:
GeneID:
Location:

GeneID:4276
TrivialName: PA14_13460
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_13460
PAO1 Ortholog Locus:PA3899
Sequence Length:510
Protein Length:169
Start: 1158373
Stop: 1157864
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07286.1|AE004807_5 (AE004807) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
Identities = 169/169 (100%), Positives = 169/169 (100%)
Sequence:
GTGTCGAGCGCCGACCTCGCCCATGCGGCCGCGTTGCATACCCTCTACAGCGACCACCACCACTGGCTCACG
GGCTGGCTGCGGCGCCGCCTCGGCTGCCCGCAGAACGCCGCCGACCTGGCCCAGGACACCTTCGTCAAGGTC
CTGGTTTCGCGCCAGGCCGCGCGCATCGACGAACCGCGCGCCTTCCTCACCACCATCGCCCGCCGCGTGCTG
TGCAACCACTACCGCCGCCAGGACGTCGAGCGCGCCTACCTGGAAGCCCTGGCCAGCCTGCCCGAGCGGGAA
GTCCCCAGCGAAGAGACCCGCGCCATCGTCCTGGAGACCCTGGTCGAGCTGGACCGTCTGCTCGACGGCCTG
CCGCCGCTGGCCAAGGAGACCTTCCTGCTGGCCCAGCTCGACGGCCTGGGCTACGCCGAGATCGCCACGCAG
CTGGGCATCTCCCTGAGCAGCGTCAAGCGCTACATGCTCAAGGCTGCGCAACGCTGCTACTTCGCCGAGCTG
CCATGA
Translation:
MSSADLAHAAALHTLYSDHHHWLTGWLRRRLGCPQNAADLAQDTFVKVLVSRQAARIDEPRAFLTTIARRVL
CNHYRRQDVERAYLEALASLPEREVPSEETRAIVLETLVELDRLLDGLPPLAKETFLLAQLDGLGYAEIATQ
LGISLSSVKRYMLKAAQRCYFAELP*
AnnotationID:4282GeneID:4276
AnnotatorUID: diggins
Modification Date/Time: 2005-04-25 20:08:13
Gene Name:
Confidence Code:3
GeneProduct:putative RNA polymerase sigma-70 factor, ECF subfa
Cell Localization:()
Synonyms:fecI
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG1595,pfam04542
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN70184.1|AE016658_1 (AE016791) RNA polymerase sigma-70 factor, ECF subfamily
           [Pseudomonas putida KT2440]
          Length = 170

 Score =  222 bits (565), Expect = 8e-58
 Identities = 104/160 (65%), Positives = 131/160 (81%)








 
Structural Features:
COG1595, RpoE, DNA-directed RNA polymerase specialized sigma subunit, 
sigma24 homolog 
[Transcription]
CD-Length = 182 residues,  91.2% aligned
Score =  105 bits (264), Expect = 2e-24
Identities = 55/166 (33%), Positives = 81/166 (48%), Gaps = 3/166 (1%)

pfam04542, Sigma70_r2, Sigma-70 region 2.
CD-Length = 71 residues,  97.2% aligned
Score = 51.0 bits (122), Expect = 7e-08
Identities = 18/69 (26%), Positives = 29/69 (42%), Gaps = 3/69 (4%)






   
Genomic Context:






   
Comment:


















    ReferenceID:15056




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:25695




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:4276
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
6582
                           PA3899_tr
                           translation of PA3899
                           169
                           99.99
                           99.99
                           0
                           859.0
     

     
     
177941
                           gb|AAG07286.1|AE004807_5
                           (AE004807) probable sigma-70 factor, ECF subfamily [Pseudomonas aeruginosa PAO1]
                           169
                           99.40
                           99.99
                           0
                           856.0
     

     
     
177942
                           gb|AAO54736.1|
                           (AE016860) RNA polymerase sigma-70 family protein [Pseudomonas syringae pv. tomato str. DC3000]
                           172
                           65.11
                           77.90
                           7
                           566.0
     

     
     
177943
                           gb|AAN70184.1|AE016658_1
                           (AE016791) RNA polymerase sigma-70 factor, ECF subfamily [Pseudomonas putida KT2440]
                           175
                           60.57
                           76.57
                           11
                           560.0
     

     
     
177944
                           emb|CAD85010.1|
                           (BX321859) Sigma factor, ECF subfamily [Nitrosomonas europaea ATCC 19718]
                           169
                           57.39
                           72.18
                           2
                           499.0
     

     






      

          
GC ORFID: 47278How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3899Glimmer Score: 

          
Start: 3795565Stop: 3796074

          
Length: 510


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3899 translation of PA3899Homolog Bit Score 335.0

          
Other Homologs:  psyr_15may02_Scaffold3_revised_gene5013 (ORF: BLASTX 226.0), t_PA1912 (ORF: BLASTX 181.0), t_PA2468 (ORF: BLASTX 177.0), psyr_15may02_Scaffold1_revised_gene1362 (ORF: BLASTX 171.0), psyr_15may02_Scaffold6_revised_gene6627 (ORF: BLASTX 156.0), t_PA0472 (ORF: BLASTX 154.0), t_PA2050 (ORF: BLASTX 153.0), t_PA4896 (ORF: BLASTX 128.0), t_PA2093 (ORF: BLASTX 122.0), t_PA3899 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGTCGAGCGCCGACCTCGCCCATGCGGCCGCGTTGCATACCCTCTACAGCGACCACCACCACTGGCTCACG 
GGCTGGCTGCGGCGCCGCCTCGGCTGCCCGCAGAACGCCGCCGACCTGGCCCAGGACACCTTCGTCAAGGTC 
CTGGTTTCGCGCCAGGCCGCGCGCATCGACGAACCGCGCGCCTTCCTCACCACCATCGCCCGCCGCGTGCTG 
TGCAACCACTACCGCCGCCAGGACGTCGAGCGCGCCTACCTGGAAGCCCTGGCCAGCCTGCCCGAGCGGGAA 
GTCCCCAGCGAAGAGACCCGCGCCATCGTCCTGGAGACCCTGGTCGAGCTGGACCGTCTGCTCGACGGCCTG 
CCGCCGCTGGCCAAGGAGACCTTCCTGCTGGCCCAGCTCGACGGCCTGGGCTACGCCGAGATCGCCACGCAG 
CTGGGCATCTCCCTGAGCAGCGTCAAGCGCTACATGCTCAAGGCTGCGCAACGCTGCTACTTCGCCGAGCTG 
CCATGA