ViewGene
Locus Name:
GeneID:
Location:

GeneID:89
TrivialName: PA14_21230
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_21230
PAO1 Ortholog Locus:PA3308
Sequence Length:2853
Protein Length:950
Start: 1840133
Stop: 1837281
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06696.1|AE004753_4 (AE004753) RNA helicase HepA [Pseudomonas aeruginosa PAO1]
Identities = 949/950 (99%), Positives = 950/950 (100%)
Sequence:
GTGGACATGGCGCAGTATCAACCGGGGCAACGCTGGATCAGCGACAGTGAAGCGGAATTGGGCCTGGGGACC
ATCCTGGCCCAGGATGGCCGCCTGCTCACCGTGCTCTATCCGGCGACCGGCGATACCCGCCAGTACGCCTTG
CGCAATGCGCCGCTGACCCGCGTGCGCTTCGCCCCCGGCGATGAAGTGACGCACTTCGAAGGCTGGAAGATG
ACCGTCCGCGAGGTCGAGGAAAGCGAGGGCCTATTGGTGTACCACGGCCTCACCGCGCAGAACGAGCAGCGC
ACCCTGCCGGAAACCCAGCTCTCCAACTTCATCCAGTTCCGCCTCGCCAGCGACCGTCTGTTCGCCGGACAG
ATCGATCCCCTGCCCTGGTTCTCCCTGCGCTACCACACTCTCGAACGCCGCAGCCAACTGCTCCAGTCCTCG
CTCTGGGGCCTCGGCGGCGCCCGCGCCCAGCCGATCGCCCACCAGTTGCACATCGCCCGCGAAGTCGCCGAC
CGCATGGCGCCGCGCGTCCTGCTGGCCGACGAAGTGGGCCTGGGCAAGACCATCGAGGCCGGCCTGATCATC
CATCGCCAGTTGCTTTCCGGCCGCGCCGGGCGGGTGCTGATCCTGGTTCCGGAAAACCTCCAGCACCAGTGG
CTGGTGGAGATGCGCCGGCGCTTCAACCTGCAGGTGGCCCTGTTCGACAAGGAGCGCTTCGCCGAAAGCGAT
GCCAGCAATCCCTTCGAGGACACCCAGTTGGCCCTGGTCGCCCTGGAGTGGCTGAAGGAAGACGAACGCGCC
CAGGACGCCCTGTTCGCCGCCGGCTGGGACCTGCTGGTGGTCGACGAAGCCCACCACCTGGTCTGGCACCAG
GACCAGGTCAGCGCCGAATACGCGCTGGTCGAGCAACTGGCGGAGATCATTCCCGGCGTCCTGTTGCTCACC
GCGACCCCGGAGCAACTCGGCCAGGACAGCCACTTCGCGCGCCTGCGCCTGCTCGATCCGAATCGTTTCCAC
GACCTCGAAGCGTTCCGCCGGGAGAGCGAGCAATATCGTCCGGTCGCCGAAGCGGTGCAGGAACTGCTCGAC
CACGGCAGTCTTTCCGCCGGCGCGCGCAAGGCCATCCACGGCTTCCTCGGCAGCGAGGGCGACGAGCTGCTG
GCCAGCGTCGAGGGCGGCGATGAAGAAGCTCGCTCGCGCCTGGTCCGCGAACTGCTCGACCGCCACGGCACC
GGCCGCGTGCTGTTCCGCAACACCCGTGCCGCCGTGCAGGGCTTCCCCCAGCGCGAACTGCACGCCTATCCG
TTGCCGATGCCGAGCCAGTACGAGGAATTGCCGGCCGGCGAACACCCGGACCTGTATCCGGAAGTGAATTTC
CAGCAGCAGTGGGAAGACGGCGACGACAACAACCGCTGGTGGCGCTTCGACCCGCGCGTCGAGTGGCTGATC
GATACCCTGAAGATGCTCAAGCAGTTCAAGGTCCTGGTCATCTGTGCCCACGCCGAGACGGCCCTCGACCTG
GAAGACGCCCTGCGCCTGCGTTCGGGCATCTCCGCCACGGTGTTCCACGAAGGCATGAGCATTCTCGAGCGC
GACCGCGCCGCCGCCTACTTCGCCGACGAAGAGTTCGGCGCCCAGGTGCTGATCTGCTCGGAAATCGGCAGC
GAAGGCCGCAACTTCCAGTTCGCCCACCATCTGGTGCTGTTCGACCTGCCGGCCCACCCGGACCTGCTCGAG
CAGCGCATCGGCCGCCTCGACCGGATCGGCCAGCGACACACCATCCAGTTGCACGTACCGCACCTGGAGAAC
AGCGCCCAGCAGCGCCTGTTCCAGTGGTATAACCAGGCGCTGAACGCCTTCCTCAATACCTGCCCCACCGGC
AACGCCCTGCAACACGAGTTCGGCCCGCGCCTGCTGCCGCTGCTCGACGGCGGCGAGGACAAGGCCTGGGAC
GCGCTGCTCGCCGAAGGCCGCGCCCGTCGCGAAGCCCTCGAAGCGGAGCTGCACAGCGGTCGCGACCGCCTG
CTGGAGCTGAACTCCGGCGGCGCCGGCGAAGGCGAGGCGCTGGTGGAGGCCATCGAGGAACAGGACGACGAC
TTCGCCCTGCCGATCTACATGGAGCGCCTGTTCGACGCCTACGGCATCCACAGCGAAGACCATTCGGAAAAT
GCCCTGATCCTCAAGCCAAGCGAGAAGATGCTCGACGCCGGCTTCCCCCTCGGCGACGACGAAGGCGTGACC
ATCACCTACGACCGTGCCCAGGCGCTGGCCCGCGAGGACATGCAGTTCCTCACCTGGGAACATCCGATGGTT
CAGGGCGGCATGGACCTGGTGCTGTCCGGCTCGATGGGCAACACCTCGGTGGCGCTGATCAAGAACAAGGCG
CTGAAGCCCGGCACCGTGCTGCTCGAACTCCTGTTCGTCAGCGAAGCCGTGGCACCGCGCGCCCTCCAGCTC
GGCCGCTGGCTGCCGCCGCAGGCCCTGCGCTGCCTGCTCGACGCCAACGGCAACGACCTGGCCGGCCGGGTG
TCCCTGGAAACCCTCAACGACCAGCTGGAAAGCGTGCCACGGGTCAGCGCCAACAAGTTCGTCCAGGCCCAG
CGCGATGTGCTGGCCAAGCAGTTCGACGTGGCCGAGGGCAAGATCGTCCCGCGCCACGAGGAACGCGTGGCC
AGGGCCAAGCAGCAGTTCGCCGCCGCCATGGACGAGGAACTGGCGCGCCTGACCGCGCTCAAGGCGGTCAAC
CCGAGCGTCCGCGACAGCGAGCTGGACAGCCTGCGCACCCAGCGCGAGGAAGGCCTGGCCCTGCTCGACAAG
GCCTCCCTGCGCCTCGAGGCGATCCGCATCCTGGTCGCCGGCTGA
Translation:
MDMAQYQPGQRWISDSEAELGLGTILAQDGRLLTVLYPATGDTRQYALRNAPLTRVRFAPGDEVTHFEGWKM
TVREVEESEGLLVYHGLTAQNEQRTLPETQLSNFIQFRLASDRLFAGQIDPLPWFSLRYHTLERRSQLLQSS
LWGLGGARAQPIAHQLHIAREVADRMAPRVLLADEVGLGKTIEAGLIIHRQLLSGRAGRVLILVPENLQHQW
LVEMRRRFNLQVALFDKERFAESDASNPFEDTQLALVALEWLKEDERAQDALFAAGWDLLVVDEAHHLVWHQ
DQVSAEYALVEQLAEIIPGVLLLTATPEQLGQDSHFARLRLLDPNRFHDLEAFRRESEQYRPVAEAVQELLD
HGSLSAGARKAIHGFLGSEGDELLASVEGGDEEARSRLVRELLDRHGTGRVLFRNTRAAVQGFPQRELHAYP
LPMPSQYEELPAGEHPDLYPEVNFQQQWEDGDDNNRWWRFDPRVEWLIDTLKMLKQFKVLVICAHAETALDL
EDALRLRSGISATVFHEGMSILERDRAAAYFADEEFGAQVLICSEIGSEGRNFQFAHHLVLFDLPAHPDLLE
QRIGRLDRIGQRHTIQLHVPHLENSAQQRLFQWYNQALNAFLNTCPTGNALQHEFGPRLLPLLDGGEDKAWD
ALLAEGRARREALEAELHSGRDRLLELNSGGAGEGEALVEAIEEQDDDFALPIYMERLFDAYGIHSEDHSEN
ALILKPSEKMLDAGFPLGDDEGVTITYDRAQALAREDMQFLTWEHPMVQGGMDLVLSGSMGNTSVALIKNKA
LKPGTVLLELLFVSEAVAPRALQLGRWLPPQALRCLLDANGNDLAGRVSLETLNDQLESVPRVSANKFVQAQ
RDVLAKQFDVAEGKIVPRHEERVARAKQQFAAAMDEELARLTALKAVNPSVRDSELDSLRTQREEGLALLDK
ASLRLEAIRILVAG*
AnnotationID:99GeneID:89
AnnotatorUID: urbach
Modification Date/Time: 2004-03-03 14:02:30
Gene Name:hepA
Confidence Code:2
GeneProduct:HepA
Cell Localization:()
Synonyms:rapA
Cell Localization Confidence Code:5
MolecularFunction:RNA helicase
Functional Category:(24) Transcription, RNA processing and degradation
Alternate Gene Product Name:RapA
Functional Category Confidence Code:5
COGs:
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:






 
Structural Features:






   
Genomic Context:






   
Comment:


















    ReferenceID:14047




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:17054




  
Author/Investigator(s):
        JULIO E. CABRERA AND DING JUN JIN





  
Title:
        Growth Phase and Growth Rate Regulation of the rapA Gene, Encoding the RNA Polymerase-Associated Protein RapA in Escherichia coli




  
PubMed:
        


MedLine:
        




    
Source:
JOURNAL OF BACTERIOLOGY, Oct. 2001, p.6126-6134 Vol. 183, No. 20






    
Reference Type:PDF (text/plain)







    
Data:6126.pdf


    		




 
URL:

















    ReferenceID:17323




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34021




  
Author/Investigator(s):
        Cabrera JE, Jin DJ.





  
Title:
        Growth phase and growth rate regulation of the rapA gene, encoding the RNA polymerase-associated protein RapA in Escherichia coli.




  
PubMed:
        11567013


MedLine:
        




    
Source:
J Bacteriol. 2001 Oct;183(20):6126-34.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=11567013









           
Homologs By Global Alignment 

           

       



     
Gene ID:89
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
168
                           PA3308_tr
                           translation of PA3308
                           950
                           99.89
                           99.99
                           0
                           4880.0
     

     
     
14086
                           gb|AAG06696.1|AE004753_4
                           (AE004753) RNA helicase HepA [Pseudomonas aeruginosa PAO1]
                           950
                           99.78
                           99.99
                           0
                           4877.0
     

     
     
14087
                           gb|AAN66770.1|AE016305_5
                           (AE016778) RNA polymerase-associated protein HepA [Pseudomonas putida KT2440]
                           951
                           84.01
                           91.69
                           4
                           4172.0
     

     
     
14088
                           gb|AAO57560.1|
                           (AE016870) ATP-dependent helicase hepA , putative [Pseudomonas syringae pv. tomato str. DC3000]
                           951
                           82.75
                           90.85
                           4
                           4111.0
     

     
     
14089
                           gb|AAN78566.1|AE016755_66
                           (AE016755) RNA polymerase associated protein [Escherichia coli CFT073]
                           975
                           52.00
                           67.58
                           32
                           2468.0
     

     






      

          
GC ORFID: 43091How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3308Glimmer Score: 

          
Start: 3113798Stop: 3116650

          
Length: 2853


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3308 translation of PA3308Homolog Bit Score 1884.0

          
Other Homologs:  psyr_15may02_Scaffold5_revised_gene6070 (ORF: BLASTX 1587.0), t_PA3308 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGGACATGGCGCAGTATCAACCGGGGCAACGCTGGATCAGCGACAGTGAAGCGGAATTGGGCCTGGGGACC 
ATCCTGGCCCAGGATGGCCGCCTGCTCACCGTGCTCTATCCGGCGACCGGCGATACCCGCCAGTACGCCTTG 
CGCAATGCGCCGCTGACCCGCGTGCGCTTCGCCCCCGGCGATGAAGTGACGCACTTCGAAGGCTGGAAGATG 
ACCGTCCGCGAGGTCGAGGAAAGCGAGGGCCTATTGGTGTACCACGGCCTCACCGCGCAGAACGAGCAGCGC 
ACCCTGCCGGAAACCCAGCTCTCCAACTTCATCCAGTTCCGCCTCGCCAGCGACCGTCTGTTCGCCGGACAG 
ATCGATCCCCTGCCCTGGTTCTCCCTGCGCTACCACACTCTCGAACGCCGCAGCCAACTGCTCCAGTCCTCG 
CTCTGGGGCCTCGGCGGCGCCCGCGCCCAGCCGATCGCCCACCAGTTGCACATCGCCCGCGAAGTCGCCGAC 
CGCATGGCGCCGCGCGTCCTGCTGGCCGACGAAGTGGGCCTGGGCAAGACCATCGAGGCCGGCCTGATCATC 
CATCGCCAGTTGCTTTCCGGCCGCGCCGGGCGGGTGCTGATCCTGGTTCCGGAAAACCTCCAGCACCAGTGG 
CTGGTGGAGATGCGCCGGCGCTTCAACCTGCAGGTGGCCCTGTTCGACAAGGAGCGCTTCGCCGAAAGCGAT 
GCCAGCAATCCCTTCGAGGACACCCAGTTGGCCCTGGTCGCCCTGGAGTGGCTGAAGGAAGACGAACGCGCC 
CAGGACGCCCTGTTCGCCGCCGGCTGGGACCTGCTGGTGGTCGACGAAGCCCACCACCTGGTCTGGCACCAG 
GACCAGGTCAGCGCCGAATACGCGCTGGTCGAGCAACTGGCGGAGATCATTCCCGGCGTCCTGTTGCTCACC 
GCGACCCCGGAGCAACTCGGCCAGGACAGCCACTTCGCGCGCCTGCGCCTGCTCGATCCGAATCGTTTCCAC 
GACCTCGAAGCGTTCCGCCGGGAGAGCGAGCAATATCGTCCGGTCGCCGAAGCGGTGCAGGAACTGCTCGAC 
CACGGCAGTCTTTCCGCCGGCGCGCGCAAGGCCATCCACGGCTTCCTCGGCAGCGAGGGCGACGAGCTGCTG 
GCCAGCGTCGAGGGCGGCGATGAAGAAGCTCGCTCGCGCCTGGTCCGCGAACTGCTCGACCGCCACGGCACC 
GGCCGCGTGCTGTTCCGCAACACCCGTGCCGCCGTGCAGGGCTTCCCCCAGCGCGAACTGCACGCCTATCCG 
TTGCCGATGCCGAGCCAGTACGAGGAATTGCCGGCCGGCGAACACCCGGACCTGTATCCGGAAGTGAATTTC 
CAGCAGCAGTGGGAAGACGGCGACGACAACAACCGCTGGTGGCGCTTCGACCCGCGCGTCGAGTGGCTGATC 
GATACCCTGAAGATGCTCAAGCAGTTCAAGGTCCTGGTCATCTGTGCCCACGCCGAGACGGCCCTCGACCTG 
GAAGACGCCCTGCGCCTGCGTTCGGGCATCTCCGCCACGGTGTTCCACGAAGGCATGAGCATTCTCGAGCGC 
GACCGCGCCGCCGCCTACTTCGCCGACGAAGAGTTCGGCGCCCAGGTGCTGATCTGCTCGGAAATCGGCAGC 
GAAGGCCGCAACTTCCAGTTCGCCCACCATCTGGTGCTGTTCGACCTGCCGGCCCACCCGGACCTGCTCGAG 
CAGCGCATCGGCCGCCTCGACCGGATCGGCCAGCGACACACCATCCAGTTGCACGTACCGCACCTGGAGAAC 
AGCGCCCAGCAGCGCCTGTTCCAGTGGTATAACCAGGCGCTGAACGCCTTCCTCAATACCTGCCCCACCGGC 
AACGCCCTGCAACACGAGTTCGGCCCGCGCCTGCTGCCGCTGCTCGACGGCGGCGAGGACAAGGCCTGGGAC 
GCGCTGCTCGCCGAAGGCCGCGCCCGTCGCGAAGCCCTCGAAGCGGAGCTGCACAGCGGTCGCGACCGCCTG 
CTGGAGCTGAACTCCGGCGGCGCCGGCGAAGGCGAGGCGCTGGTGGAGGCCATCGAGGAACAGGACGACGAC 
TTCGCCCTGCCGATCTACATGGAGCGCCTGTTCGACGCCTACGGCATCCACAGCGAAGACCATTCGGAAAAT 
GCCCTGATCCTCAAGCCAAGCGAGAAGATGCTCGACGCCGGCTTCCCCCTCGGCGACGACGAAGGCGTGACC 
ATCACCTACGACCGTGCCCAGGCGCTGGCCCGCGAGGACATGCAGTTCCTCACCTGGGAACATCCGATGGTT 
CAGGGCGGCATGGACCTGGTGCTGTCCGGCTCGATGGGCAACACCTCGGTGGCGCTGATCAAGAACAAGGCG 
CTGAAGCCCGGCACCGTGCTGCTCGAACTCCTGTTCGTCAGCGAAGCCGTGGCACCGCGCGCCCTCCAGCTC 
GGCCGCTGGCTGCCGCCGCAGGCCCTGCGCTGCCTGCTCGACGCCAACGGCAACGACCTGGCCGGCCGGGTG 
TCCCTGGAAACCCTCAACGACCAGCTGGAAAGCGTGCCACGGGTCAGCGCCAACAAGTTCGTCCAGGCCCAG 
CGCGATGTGCTGGCCAAGCAGTTCGACGTGGCCGAGGGCAAGATCGTCCCGCGCCACGAGGAACGCGTGGCC 
AGGGCCAAGCAGCAGTTCGCCGCCGCCATGGACGAGGAACTGGCGCGCCTGACCGCGCTCAAGGCGGTCAAC 
CCGAGCGTCCGCGACAGCGAGCTGGACAGCCTGCGCACCCAGCGCGAGGAAGGCCTGGCCCTGCTCGACAAG 
GCCTCCCTGCGCCTCGAGGCGATCCGCATCCTGGTCGCCGGCTGA