ViewGene
Locus Name:
GeneID:
Location:

GeneID:5879
TrivialName: PA14_37920
AnnotatorUID: danlee
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_37920
PAO1 Ortholog Locus:
Sequence Length:1668
Protein Length:555
Start: 3384647
Stop: 3386312
Strand: +
Type:
ChromosomeID:2
Status: INACTIVE
Frame Discrepancy: TRUE
Missense Discrepancy:TRUE
Comments:
Replaced by GeneID7412 (PA14_37915). Homology: gb|AAG05443.1|AE004632_2 (AE004632) probable MFS transporter [Pseudomonas aeruginosa PAO1]
Identities = 441/442 (99%), Positives = 441/442 (99%)
Sequence:
ATGCTCGCCCTGCTCGCCAGCGCGCAACTGATCATCGCCCTCGACGCCACCATCGTGTTCGTCGCCCTGCCG
GAAATCAGCCGGGCGCTGGATTTCTCGGCGCAACGCCTGCAATGGGTGGTGAGCGCCTATACGGTGGCCTTC
GGCGGCTTCCTCCTGCTCGGCGGGCGCGCCACCGACCTGCTCGGCCGGCGCCGCATGTACGTCCTCGGGCAA
AGCCTGTACGCCCTCGCCTCCCTCGCGGGCGGCCTGGCCCAGAGCGAGTTGCCGTTGATCCTCGCCCGCGCC
GTGCAGGGCCTGGGTGGCGCGCTGCTGTTCCCGGCGACCCTGGCGCTGATCGGCAATCACTTCGCCGAGGGC
CCGGCGCGCAATCGTGCCCTGGCGATCTGGAGCATCGCCTCGGCGTTCGGCCTGGCCCTCGGTTCGGCGCTC
GGCGGCGCGCTCACCGAGCTGTTCGGCTGGGCCTCGATCTTCCTGGTCAACGTGCCGCTGGCCGGCGCCGCG
GCGCTGCTCGCCCTGCGCCTGATCCCGGCCGACGCCCGGCGCCAGCGCGGTCGGCGCTTCGACCTGGCCGGC
GCGCTGACGGTCACCGCCGGCGCCACCCTGCTGGTCTTCGCCCTGGTCCAGGGCCCCGAGTCGGGCTGGGAT
GCGCCCTCGGTACGTTTCGGACTTTACCTTTCCGTCCCGCTGCTACTGGCGTTCCTCGCCATCGAACACTAC
AGCCGCGACCCGCTGATGCCGCTGCGCCTGCTGGGCAACCGCAACCTGCAGGTGGCGATGCTGCTGACCGCG
ATCTTCATGAGCAGCTACGGCGTGCAGTACTACTTCCTGGCCATCTACTTCCAGTCGGTGTACGGCTACAGC
GTGTTGCAGACCGGCCTGGCGTTCCTCCCGGCGACTCTGCTCTGTACCCTCGGTATCCGCGTCGCCGAGCGC
CTGCTGGCCCGCCACGGGGCACGCGCGACGCTGGTCGCCGGCCTGCTGCTGGGCGCACTCGGGCTCGGCCTG
CTGGCAGCGTGCCTGCCGCTGGGGCGCGGCTTCCTGGCGCTGCTGCCGGCCATCGTGATCCTCAGCGTCGGC
CAGGGCATGACCTGGACCGCCATGTGGGTCAGCGCCGCCAGCGGCGTCGATCCCGCCGAACAGGGCGTCGCC
TCGGGGATGGCCTCGATGACCCAGCAGATCGGCGGCGCGCTCGGCCTGGCCCTGCTGGTGGCGCTGGCCAAC
GCCCAGGTGCGCGGCGCCGATGCCGCCAGCCTGCTGGCCAGCCAGGCGCGCGGCATCGAATGGGTGACCGCG
CTCAGCGCCCTGCTCGCCCTGTTTGGCgcccgccCtggccctTGCgTCTGCGCCGCGAGGAACCCGCGGCGT
TGCAGCCGAGTCGCGGCTGATCCCGCTCAGGCGTCGCCCAGCTCGGCGCCGAGTTCCAGCGCCAGGGCCTGG
AAGGCCAGGCGCGCGGCGCCGGGATGGCTGCCCTGGCGCCAGAACAGCGCTACCTGGCGGGTCGGCAACGCC
GGCCGCAGCGCCACGCAGCGCAACCCGGCCTGCTGGCGCGCCACCGCCTCTGGCAGGATGCTGGCCAGCCGT
CCGCGGCGAACCACGTCGACGATGGCGCTGATCGAGTTCGCCTCCAGCGCCACCCGCGCCGTCACCCCTTGC
TGGCGCAGGTAA
Translation:
MLALLASAQLIIALDATIVFVALPEISRALDFSAQRLQWVVSAYTVAFGGFLLLGGRATDLLGRRRMYVLGQ
SLYALASLAGGLAQSELPLILARAVQGLGGALLFPATLALIGNHFAEGPARNRALAIWSIASAFGLALGSAL
GGALTELFGWASIFLVNVPLAGAAALLALRLIPADARRQRGRRFDLAGALTVTAGATLLVFALVQGPESGWD
APSVRFGLYLSVPLLLAFLAIEHYSRDPLMPLRLLGNRNLQVAMLLTAIFMSSYGVQYYFLAIYFQSVYGYS
VLQTGLAFLPATLLCTLGIRVAERLLARHGARATLVAGLLLGALGLGLLAACLPLGRGFLALLPAIVILSVG
QGMTWTAMWVSAASGVDPAEQGVASGMASMTQQIGGALGLALLVALANAQVRGADAASLLASQARGIEWVTA
LSALLALFGARPGPCVCAARNPRRCSRVAADPAQASPSSAPSSSARAWKARRAAPGWLPWRQNSATWRVGNA
GRSATQRNPACWRATASGRMLASRPRRTTSTMALIEFASSATRAVTPCWRR*
AnnotationID:5880GeneID:5879
AnnotatorUID: danlee
Modification Date/Time: 2006-03-10 16:04:21
Gene Name:
Confidence Code:4
GeneProduct:
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:()
Alternate Gene Product Name:putative permease
Functional Category Confidence Code:5
COGs:COG2814
Secondary Functional Category(ies):carbohydrate transport and metabolism
EC Number:
Status:INACTIVE
Pathway:






 
Homology:
>emb|CAE43200.1| (BX640419) putative membrane transport protein [Bordetella
           pertussis]
          Length = 476

 Score =  449 bits (1156), Expect = e-125
 Identities = 246/440 (55%), Positives = 298/440 (67%)

>dbj|BAB69375.1| (AB070955) MFS_transporter protein [Streptomyces avermitilis]
          Length = 465

 Score =  435 bits (1118), Expect = e-121
 Identities = 227/419 (54%), Positives = 281/419 (67%)








 
Structural Features:
COG2814, AraJ, Arabinose efflux permease [Carbohydrate transport and metabolism]
CD-Length = 394 residues,  86.3% aligned
Score = 60.6 bits (147), Expect = 4e-10
Identities = 95/401 (23%), Positives = 137/401 (34%), Gaps = 61/401 (15%)






   
Genomic Context:






   
Comment:
GeneID5879 (PA14_37920) replaced by GeneID7412 (PA14_37915).


















    ReferenceID:11671




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:28878




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32639




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:5879_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:5879
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
7930
                           PA2055_tr
                           translation of PA2055
                           565
                           79.29
                           79.46
                           104
                           2158.0
     

     
     
197905
                           gb|AAG05443.1|AE004632_2
                           (AE004632) probable MFS transporter [Pseudomonas aeruginosa PAO1]
                           565
                           79.29
                           79.46
                           104
                           2158.0
     

     
     
197906
                           emb|CAE43200.1|
                           (BX640419) putative membrane transport protein [Bordetella pertussis] [Bordetella pertussis Tohama I]
                           584
                           42.80
                           51.88
                           137
                           1157.0
     

     
     
197907
                           emb|CAE31786.1|
                           (BX640440) putative transport protein [Bordetella bronchiseptica] [Bordetella bronchiseptica RB50]
                           584
                           42.80
                           51.88
                           137
                           1156.0
     

     
     
197908
                           dbj|BAC68320.1|
                           (AP005023) putative MFS transporter protein [Streptomyces avermitilis MA-4680]
                           576
                           40.97
                           50.52
                           132
                           1107.0
     

     






      

          
GC ORFID: 48881How Found: Glimmer

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: Glimmer Score: 

          
Start: 1569266Stop: 1567599

          
Length: 1668


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA2055 translation of PA2055Homolog Bit Score 834.0

          
Other Homologs:  t_PA2055 translation of PA2055 (BLASTP 834)

          
GC ORF Sequence

           
ATGCTCGCCCTGCTCGCCAGCGCGCAACTGATCATCGCCCTCGACGCCACCATCGTGTTCGTCGCCCTGCCG 
GAAATCAGCCGGGCGCTGGATTTCTCGGCGCAACGCCTGCAATGGGTGGTGAGCGCCTATACGGTGGCCTTC 
GGCGGCTTCCTCCTGCTCGGCGGGCGCGCCACCGACCTGCTCGGCCGGCGCCGCATGTACGTCCTCGGGCAA 
AGCCTGTACGCCCTCGCCTCCCTCGCGGGCGGCCTGGCCCAGAGCGAGTTGCCGTTGATCCTCGCCCGCGCC 
GTGCAGGGCCTGGGTGGCGCGCTGCTGTTCCCGGCGACCCTGGCGCTGATCGGCAATCACTTCGCCGAGGGC 
CCGGCGCGCAATCGTGCCCTGGCGATCTGGAGCATCGCCTCGGCGTTCGGCCTGGCCCTCGGTTCGGCGCTC 
GGCGGCGCGCTCACCGAGCTGTTCGGCTGGGCCTCGATCTTCCTGGTCAACGTGCCGCTGGCCGGCGCCGCG 
GCGCTGCTCGCCCTGCGCCTGATCCCGGCCGACGCCCGGCGCCAGCGCGGTCGGCGCTTCGACCTGGCCGGC 
GCGCTGACGGTCACCGCCGGCGCCACCCTGCTGGTCTTCGCCCTGGTCCAGGGCCCCGAGTCGGGCTGGGAT 
GCGCCCTCGGTACGTTTCGGACTTTACCTTTCCGTCCCGCTGCTACTGGCGTTCCTCGCCATCGAACACTAC 
AGCCGCGACCCGCTGATGCCGCTGCGCCTGCTGGGCAACCGCAACCTGCAGGTGGCGATGCTGCTGACCGCG 
ATCTTCATGAGCAGCTACGGCGTGCAGTACTACTTCCTGGCCATCTACTTCCAGTCGGTGTACGGCTACAGC 
GTGTTGCAGACCGGCCTGGCGTTCCTCCCGGCGACTCTGCTCTGTACCCTCGGTATCCGCGTCGCCGAGCGC 
CTGCTGGCCCGCCACGGGGCACGCGCGACGCTGGTCGCCGGCCTGCTGCTGGGCGCACTCGGGCTCGGCCTG 
CTGGCAGCGTGCCTGCCGCTGGGGCGCGGCTTCCTGGCGCTGCTGCCGGCCATCGTGATCCTCAGCGTCGGC 
CAGGGCATGACCTGGACCGCCATGTGGGTCAGCGCCGCCAGCGGCGTCGATCCCGCCGAACAGGGCGTCGCC 
TCGGGGATGGCCTCGATGACCCAGCAGATCGGCGGCGCGCTCGGCCTGGCCCTGCTGGTGGCGCTGGCCAAC 
GCCCAGGTGCGCGGCGCCGATGCCGCCAGCCTGCTGGCCAGCCAGGCGCGCGGCATCGAATGGGTGACCGCG 
CTCAGCGCCCTGCTCGCCCTGTTTGGCgcccgccCtggccctTGCgTCTGCGCCGCGAGGAACCCGCGGCGT 
TGCAGCCGAGTCGCGGCTGATCCCGCTCAGGCGTCGCCCAGCTCGGCGCCGAGTTCCAGCGCCAGGGCCTGG 
AAGGCCAGGCGCGCGGCGCCGGGATGGCTGCCCTGGCGCCAGAACAGCGCTACCTGGCGGGTCGGCAACGCC 
GGCCGCAGCGCCACGCAGCGCAACCCGGCCTGCTGGCGCGCCACCGCCTCTGGCAGGATGCTGGCCAGCCGT 
CCGCGGCGAACCACGTCGACGATGGCGCTGATCGAGTTCGCCTCCAGCGCCACCCGCGCCGTCACCCCTTGC 
TGGCGCAGGTAA