ViewGene
Locus Name:
GeneID:
Location:

GeneID:6538
TrivialName: PA14_12420
AnnotatorUID: urbach
Modification Date/Time:2006-08-22 20:08:33
LocusName:PA14_12420
PAO1 Ortholog Locus:
Sequence Length:1746
Protein Length:581
Start: 1069280
Stop: 1071025
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07361.1|AE004815_5 (AE004815) probable two-component sensor [Pseudomonas aeruginosa PAO1]

Identities = 379/379 (100%), Positives = 379/379 (100%)

This seems to represent a PAO1 gene disrupted by a 49 base insertion. 6537 looks like the other part of this gene.
Sequence:
ATGCGGCACTGGCTGATTCTCTTTCTTCTTGCGTTGCCGTGCCTGGCGGGTGCGGTGAGCTTCAACGAGCAG
GTCGAGCGCCTGCCGCTGGGGCAGTCCATCGACGTGTTCGAGGACGTGCGCGGTAGCGCCGATATCAACGAC
ATCACCTCGCGGGCCATCGACAGCAGCTTCCGCCGCCATGACAAGGACGTGCTCAATGCCGGCTATTCGCGC
TCGGTGTTCTGGTTGCGCCTGGACCTGGACTACCGGCCGGTCGCCTCCAGCGATCCGCGCACCTGGCTGCTG
GAGCTGGCCTATCCGCCGCTGGACAAGCTCGACCTCTACCTGCCCGATGGCCAGGGCGGCTACCGCCTCGCC
CAACGCACCGGCGACACATTGCCGTTCGCCAGTCGGCCGATCCGGCAGAACAACTACCTGTTCGAACTCGGC
CTCGAGCCGAACAAGCCGCAGCGTGTCTACCTGCGGCTGGAAAGCCAGGGATCGATCCAGGCGCCGTTGACC
CTGTGGTCGCCCAAGGCCTACCTGGAGGAGCAGCCCGAACGCATCTATGTGCTCGGCATCATCTATGGCGTG
CTGCTGGTGATGCTGATCTACAACCTGTTCATCTTCCTCAGCGTCCGCGATACCAGCTATCTCTACTACATC
CTCTATATCGCTTCCTTCGGGCTCTACCAGGTCTCGGTGAACGGCGCCGGCATCGAGTACTTCTGGCCTGAC
AGCCCCTGGTGGGCGAACGCCGCCACGCCATTCCTGATCGGTTCGGCGGCGCTGTTCGGCTGCCAGTTCGCG
CGCAGCTTCCTGCATACCCGCGACCACAGCGTGTGGGTCGACCGCGGCCTGCTGGCGCTGATGGCGGTCGGC
GCGCTGGTCATGCTGATGGCGCTGACCATGAGCTACGCCGTGGCTCTACGCCTGGCCACCTACCTGGCGCTG
GCCTTCACCGGCCTGATCTTCGCCGCCGGCATCCTCGCCTGGCTGCGCGGCATGCGCGTGGCGCGCTATTTC
ATCATCGCCTGGACCGCCTTCCTTCTCGGCGGCATCGTCAATACCCTGATGGTCCTCGGCTACCTGCCGAAC
ATGTTCCTCACTATGTATGCCAGCCAGATCGGTTCGGCGCTGGAGGTGGGCTTGCTGTACTATGTATGCCAG
CCAGATCGGTTCGGCGCTGGAGGTGGGCTTGCTGTCGCTGGCGCTGGCCGACCGGATCAACGCGATGAAGGA
GGAGCGCGCGCGAATCCTCCAGGAGTCCAGCCGCAAGCTGGAAGCGCTGAACCAGGAACTGGCCAACAGCAA
TCGCCTGAAGGACGAGTTCCTCGCCACCGTCACCCACGAACTGCGCACCCCGATGAGCGGGGTGATCGGTTC
GCTGGAGCTGATGCAGACGGTGCCGATGGACGTCGAACTCGCCGAGTACCAGCGCACCGCCGCCGGTTCGGC
GCGGGACATGATGCGGATGGTCAACGACATCCTCGCCCTCATCGAACTGCAGGCCGGCAAGCTTTACCCGCG
CCGCGAGCCGTTCAGCCTGCGCGGCCTGTTCGACAGCCTGCGCGCGCAGTACGCGCCGCGCGCCGAGGAGAA
GGGCCTGCGCTTCGCCCTGCAACTGGACGACAGCCTGCCGGACACCCTCGAAGGCGATGCCGGCAAGCTGGC
CCAGGCGCTGGGCTACCTGGTCGACAACGCGATCAAGTTCACCGCCAGGGGCAGCGTCACCCTGCGCGTCGC
CGCCGGGCGTACCCATGA
Translation:
MRHWLILFLLALPCLAGAVSFNEQVERLPLGQSIDVFEDVRGSADINDITSRAIDSSFRRHDKDVLNAGYSR
SVFWLRLDLDYRPVASSDPRTWLLELAYPPLDKLDLYLPDGQGGYRLAQRTGDTLPFASRPIRQNNYLFELG
LEPNKPQRVYLRLESQGSIQAPLTLWSPKAYLEEQPERIYVLGIIYGVLLVMLIYNLFIFLSVRDTSYLYYI
LYIASFGLYQVSVNGAGIEYFWPDSPWWANAATPFLIGSAALFGCQFARSFLHTRDHSVWVDRGLLALMAVG
ALVMLMALTMSYAVALRLATYLALAFTGLIFAAGILAWLRGMRVARYFIIAWTAFLLGGIVNTLMVLGYLPN
MFLTMYASQIGSALEVGLLYYVCQPDRFGAGGGLAVAGAGRPDQRDEGGARANPPGVQPQAGSAEPGTGQQQ
SPEGRVPRHRHPRTAHPDERGDRFAGADADGADGRRTRRVPAHRRRFGAGHDADGQRHPRPHRTAGRQALPA
PRAVQPARPVRQPARAVRAARRGEGPALRPATGRQPAGHPRRRCRQAGPGAGLPGRQRDQVHRQGQRHPARR
RRAYP*
AnnotationID:6539GeneID:6538
AnnotatorUID: danlee
Modification Date/Time: 2006-05-02 15:03:30
Gene Name:
Confidence Code:3
GeneProduct:N-terminus of probable two-component sensor
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(28) Two-component regulatory systems
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
gi|9950164|gb|AAG07361.1|  probable two-component sensor [Pseudomonas aeruginosa PAO1]
 gi|15599169|ref|NP_252663.1|  probable two-component sensor [Pseudomonas aeruginosa PAO1]
Length=795

 Score =  759 bits (1961),  Expect = 0.0
 Identities = 379/379 (100%), Positives = 379/379 (100%), Gaps = 0/379 (0%)






 
Structural Features:






   
Genomic Context:






   
Comment:
Aligns with first 379 amino acids (50%) of PAO1 PA3974.
PA14 has a 49 base insertion that disrupts this ORF.


















    ReferenceID:12866




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:30176




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:6538
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
8001
                           PA3974_tr
                           translation of PA3974
                           836
                           52.15
                           54.54
                           296
                           1940.0
     

     
     
200028
                           gb|AAG07361.1|AE004815_5
                           (AE004815) probable two-component sensor [Pseudomonas aeruginosa PAO1]
                           836
                           52.15
                           54.54
                           296
                           1940.0
     

     
     
200029
                           gb|AAN70350.1|AE016677_1
                           (AE016792) sensor histidine kinase [Pseudomonas putida KT2440]
                           713
                           43.05
                           51.19
                           183
                           1323.0
     

     
     
200030
                           gb|AAO58225.1|
                           (AE016873) sensor histidine kinase [Pseudomonas syringae pv. tomato str. DC3000]
                           707
                           35.64
                           47.52
                           165
                           1075.0
     

     






      

          
GC ORFID: 49540How Found: Glimmer

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: Glimmer Score: 

          
Start: 3884658Stop: 3882913

          
Length: 1746


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3974 translation of PA3974Homolog Bit Score 759.0

          
Other Homologs:  t_PA3974 translation of PA3974 (BLASTP 759), psyr_15may02_Scaffold4_revised_gene5344 related to: gi|15599169|ref|NP_252663.1| (NC_002516) probable two-component sensor [Pseudomonas aeruginosa] pir||D83149 probable two-component sensor PA3974 [imported] - Pseudomonas aeruginosa (strain PAO1) gb|AAG07361.1|AE004815_5 (AE004815) probable two-co-TRUNCATED- (BLASTP 431)

          
GC ORF Sequence

           
ATGCGGCACTGGCTGATTCTCTTTCTTCTTGCGTTGCCGTGCCTGGCGGGTGCGGTGAGCTTCAACGAGCAG 
GTCGAGCGCCTGCCGCTGGGGCAGTCCATCGACGTGTTCGAGGACGTGCGCGGTAGCGCCGATATCAACGAC 
ATCACCTCGCGGGCCATCGACAGCAGCTTCCGCCGCCATGACAAGGACGTGCTCAATGCCGGCTATTCGCGC 
TCGGTGTTCTGGTTGCGCCTGGACCTGGACTACCGGCCGGTCGCCTCCAGCGATCCGCGCACCTGGCTGCTG 
GAGCTGGCCTATCCGCCGCTGGACAAGCTCGACCTCTACCTGCCCGATGGCCAGGGCGGCTACCGCCTCGCC 
CAACGCACCGGCGACACATTGCCGTTCGCCAGTCGGCCGATCCGGCAGAACAACTACCTGTTCGAACTCGGC 
CTCGAGCCGAACAAGCCGCAGCGTGTCTACCTGCGGCTGGAAAGCCAGGGATCGATCCAGGCGCCGTTGACC 
CTGTGGTCGCCCAAGGCCTACCTGGAGGAGCAGCCCGAACGCATCTATGTGCTCGGCATCATCTATGGCGTG 
CTGCTGGTGATGCTGATCTACAACCTGTTCATCTTCCTCAGCGTCCGCGATACCAGCTATCTCTACTACATC 
CTCTATATCGCTTCCTTCGGGCTCTACCAGGTCTCGGTGAACGGCGCCGGCATCGAGTACTTCTGGCCTGAC 
AGCCCCTGGTGGGCGAACGCCGCCACGCCATTCCTGATCGGTTCGGCGGCGCTGTTCGGCTGCCAGTTCGCG 
CGCAGCTTCCTGCATACCCGCGACCACAGCGTGTGGGTCGACCGCGGCCTGCTGGCGCTGATGGCGGTCGGC 
GCGCTGGTCATGCTGATGGCGCTGACCATGAGCTACGCCGTGGCTCTACGCCTGGCCACCTACCTGGCGCTG 
GCCTTCACCGGCCTGATCTTCGCCGCCGGCATCCTCGCCTGGCTGCGCGGCATGCGCGTGGCGCGCTATTTC 
ATCATCGCCTGGACCGCCTTCCTTCTCGGCGGCATCGTCAATACCCTGATGGTCCTCGGCTACCTGCCGAAC 
ATGTTCCTCACTATGTATGCCAGCCAGATCGGTTCGGCGCTGGAGGTGGGCTTGCTGTACTATGTATGCCAG 
CCAGATCGGTTCGGCGCTGGAGGTGGGCTTGCTGTCGCTGGCGCTGGCCGACCGGATCAACGCGATGAAGGA 
GGAGCGCGCGCGAATCCTCCAGGAGTCCAGCCGCAAGCTGGAAGCGCTGAACCAGGAACTGGCCAACAGCAA 
TCGCCTGAAGGACGAGTTCCTCGCCACCGTCACCCACGAACTGCGCACCCCGATGAGCGGGGTGATCGGTTC 
GCTGGAGCTGATGCAGACGGTGCCGATGGACGTCGAACTCGCCGAGTACCAGCGCACCGCCGCCGGTTCGGC 
GCGGGACATGATGCGGATGGTCAACGACATCCTCGCCCTCATCGAACTGCAGGCCGGCAAGCTTTACCCGCG 
CCGCGAGCCGTTCAGCCTGCGCGGCCTGTTCGACAGCCTGCGCGCGCAGTACGCGCCGCGCGCCGAGGAGAA 
GGGCCTGCGCTTCGCCCTGCAACTGGACGACAGCCTGCCGGACACCCTCGAAGGCGATGCCGGCAAGCTGGC 
CCAGGCGCTGGGCTACCTGGTCGACAACGCGATCAAGTTCACCGCCAGGGGCAGCGTCACCCTGCGCGTCGC 
CGCCGGGCGTACCCATGA