nusA:Gene: Difference between revisions

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!align=left {{table_heading_style}} |Synonyms
!align=left {{table_heading_style}} |Synonyms
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''ECK3158, b3169, JW3138''<ref name='LIB:Riley_2006'/>
''ECK3158, b3169, JW3138''<ref name='LIB:Riley_2006'/>, JW3138''


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{|   id="L46a9ef43e2c25"  class=" tableEdit Gene_location_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="L46a9ef43e2c25"  class=" tableEdit Gene_location_table"   
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!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
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W3110: 3317381..3315894<br /><gbrowseImage>
W3110: 3317381..3315894<br /><gbrowseImage>
name=AC_000091:3315894..3317381
name=NC_007779:3315894..3317381
source=W3110
source=W3110
preset=GeneLocation
preset=GeneLocation
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{{GBrowseLink|W3110|AC_000091|3314894|3318381|GBrowse(W3110)}}  
{{GBrowseLink|W3110|NC_007779|3314894|3318381|GBrowse(W3110)}}  
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{{GBrowseFastaLink|W3110|AC_000091|3315894|3317381|FASTA Dump}}  
{{GBrowseFastaLink|W3110|NC_007779|3315894|3317381|FASTA Dump}}  
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{|   id="L46a9ef44a2161"  class=" tableEdit Gene_sequence_features_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="L46a9ef44a2161"  class=" tableEdit Gene_sequence_features_table"   
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!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
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****************************************************************************************** -->{{Gene_alleles_help}}
{| {{Prettytable}} id="G46a9ef44ea1a1"  class=" tableEdit Gene_allele_table dataTable"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;" id="G46a9ef44ea1a1"  class=" tableEdit Gene_allele_table dataTable"   
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!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
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nusA(del) in MDS42
''NusA(del)''
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deletion
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fig. 2
See figure 2A


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{|   id="M4e04c072c4430"  class=" tableEdit Genetic_interaction_table dataTable"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="M4e04c072c4430"  class=" tableEdit Genetic_interaction_table dataTable"   
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!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
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!|Resource!!Resource Type!!Source!!Notes/Reference
!|Resource!!Resource Type!!Source!!Notes/Reference
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=519 Genobase]
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=519 Genobase]
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PMID:3038334
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[[:Category:Kohara_Phage:18H7|18H7]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=520 Genobase]
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PMID:3038334  
PMID:3038334  
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est. P1 cotransduction: 54% <ref name='LIB:Nichols_linked_Tn'/> <br />  
est. P1 cotransduction: 54% <ref name='LIB:Nichols_linked_Tn'/> <br />  
Synonyms:zgj-203::Tn10, zha-203::Tn10  
Synonyms:zgj-203::Tn10, zha-203::Tn10  
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[[:Category:Kohara_Phage:18H7|18H7]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=520 Genobase]
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PMID:3038334


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{|   id="E46a9ef4650525"  class=" tableEdit Gene_accessions_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="E46a9ef4650525"  class=" tableEdit Gene_accessions_table"   
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!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10665 EcoCyc:EG10665]
EcoCyc:EG10665
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
[[EcoGene]]
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[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB0659 EchoBASE:EB0659]
EcoGene:EG10665
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])
[[RegulonDB]]
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[http://chase.ou.edu/macro/searchlink.php?bnum=b3169 EcoliGenExpDB:b3169]
RegulonDB:ECK120000658
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
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[http://BioCyc.org/ECOL199310/new-image?object=C3926 ECOL199310CYC:C3926]
[http://www.ncbi.nlm.nih.gov/gene?term=947682 GeneID:947682]
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Escherichia coli str. K-12 substr. MG1655
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[EchoBASE]]
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[http://ecogene.org/geneinfo.php?eg_id=EG10665 EcoGene:EG10665]
EchoBASE:EB0659
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])
[[ASAP]]
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[http://BioCyc.org/ECOO157/new-image?object=NUSA ECOO157CYC:NUSA]
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ASAP:ABE-0010413
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[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
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[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/441 CGSC:441]
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[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWikiPage]])
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[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0010413&formSubmitReturn=1 ASAP:ABE-0010413]
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!|Name!!URL!!Comments
!|Name!!URL!!Comments

Latest revision as of 20:46, 19 September 2013

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Location(s) and DNA Sequence Sequence Features Alleles and Phenotypes Genetic Interactions Genetic Resources Accessions Links References Suggestions

Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

nusA

Mnemonic

N (phage lambda protein) utilization substance

Synonyms

ECK3158, b3169, JW3138[1], JW3138

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Notes

Location(s) and DNA Sequence

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See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

71.43 minutes 

MG1655: 3315548..3314061
<gbrowseImage> name=NC_000913:3314061..3315548 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3252760..3251273
<gbrowseImage> name=NC_012967:3251273..3252760 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3201209..3202696
<gbrowseImage> name=NC_012759:3201209..3202696 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3317381..3315894
<gbrowseImage> name=NC_007779:3315894..3317381 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3413293..3411806
<gbrowseImage> name=NC_010473:3411806..3413293 source=DH10B preset=GeneLocation </gbrowseImage>

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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes

Coding Start (SO:0000323)

MG1655

3314061

Edman degradation

PMID:1847365[2]
PMID:6364142[3]
PMID:9298646[4]


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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

nusA::Tn5KAN-I-SceI (FB21054)

Insertion at nt 1250 in Plus orientation

PMID:15262929[5]

E. coli Genome Project:FB21054

contains pKD46

nusAG181D

G181D

In nusa11; inability to terminate transcription normally at termination sites

seeded from UniProt:P0AFF6

nusAL183R

L183R

In nusA1; restricts lambda growth by preventing antitermination activity of lambda N protein

seeded from UniProt:P0AFF6

nusAE212K

E212K

In nusA10-1

seeded from UniProt:P0AFF6

nusAR104H

R104H

In nusA10-1

seeded from UniProt:P0AFF6

nusA1

CGSC:6506

NusA(del)

deletion

Sensitivity to

increases sensitivity to bicyclomycin

PMID:21183718[6]

See figure 2A

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Notes

Genetic Interactions

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Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW3138

Plasmid clone

Shigen

PMID:16769691[7]

Status:Clone OK

Primer 1:GCCAACAAAGAAATTTTGGCTGT

Primer 2:CCgGCTTCGTCACCGAACCAGCA

E4G11S

Kohara Phage

Genobase

PMID:3038334[8]

18H7

Kohara Phage

Genobase

PMID:3038334[8]

aer-3075::Tn10

Linked marker

CAG12152 = CGSC7438[9]

est. P1 cotransduction: % [10]
Synonyms:zgh-3075::Tn10, zgj-3075::Tn10

sfsB203::Tn10

Linked marker

CAG12072 = CGSC7440[9]

est. P1 cotransduction: 54% [10]
Synonyms:zgj-203::Tn10, zha-203::Tn10

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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc

EcoCyc:EG10665

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10665

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000658

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947682

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0659

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010413

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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<protect>

References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ Ito, K et al. (1991) Genetic interaction between the beta' subunit of RNA polymerase and the arginine-rich domain of Escherichia coli nusA protein. J. Bacteriol. 173 1492-501 PubMed
  3. ↑ Ishii, S et al. (1984) tRNAMetf2 gene in the leader region of the nusA operon in Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 81 409-13 PubMed
  4. ↑ Link, AJ et al. (1997) Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12. Electrophoresis 18 1259-313 PubMed
  5. ↑ Kang, Y et al. (2004) Systematic mutagenesis of the Escherichia coli genome. J. Bacteriol. 186 4921-30 PubMed
  6. ↑ Washburn, RS & Gottesman, ME (2011) Transcription termination maintains chromosome integrity. Proc. Natl. Acad. Sci. U.S.A. 108 792-7 PubMed
  7. ↑ Kitagawa, M et al. (2005) Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. coli K-12 ORF archive): unique resources for biological research. DNA Res. 12 291-9 PubMed
  8. ↑ 8.0 8.1 Kohara, Y et al. (1987) The physical map of the whole E. coli chromosome: application of a new strategy for rapid analysis and sorting of a large genomic library. Cell 50 495-508 PubMed
  9. ↑ 9.0 9.1 CGSC: The Coli Genetics Stock Center
  10. ↑ 10.0 10.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).

Categories

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