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insF-5:On One Page

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Standard Name

insF-5

Gene Synonym(s)

insF, ECK0299, b0299, JW0293, insF1, tra5-5, b0372, JW0363, insF2, tra5-1, b0541, JW0529, insF3, tra5-2, b1026, JW1012, insF4, tra5-3, b2089, JW2073, insF5, tra5-4, insF-1, insF-2, insF-3, insF-4[1][2][3]

Product Desc.

IS3 element protein InsF[3][2]

Product Synonyms(s)

IS3 element protein InsF[1], DLP12 prophage; IS3 element protein InsF[1], B0372[3][1], Tra5-1[3][1], Tra5-4[3][1], B0299[3][1], B0541[3][1], B1026[3][1], B2089[3][1], Tra5-2[3][1], Tra5-3[3][1], Tra5-5[3][1], InsF-1[3][1], InsF-2[3][1], InsF-3[3][1], InsF-4[3][1], InsF-5[3][1]

Function from GO
Knock-Out Phenotype
Regulation/Expression

transcription unit(s): eaeH[3], insEF-2[3], insEF-3[3], insEF-4[3], insEF-5[3]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(insF-5)    Textpresso(insF-5)

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Notes

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Gene

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Nomenclature

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

Standard name

insF-5

Mnemonic
Synonyms

insF, ECK0299, b0299, JW0293, insF1, tra5-5, b0372, JW0363, insF2, tra5-1, b0541, JW0529, insF3, tra5-2, b1026, JW1012, insF4, tra5-3, b2089, JW2073, insF5, tra5-4, insF-1, insF-2, insF-3, insF-4[1][2][3]

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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.

StrainMap locationGenome coordinatesGenome browsersSequence links

MG1655

6.79 minutes 

MG1655: 314811..315677
gbrowse_img.php?coord=314811..315677&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 2883130..2883936
gbrowse_img.php?coord=2883130..2883936&genome=REL606&name=NC_012967&trackset=0&width=300&.png

REL606

NC_012967: 1615832..1616698
gbrowse_img.php?coord=1615832..1616698&genome=REL606&name=NC_012967&trackset=0&width=300&.png

REL606

NC_012967: 1608278..1609144
gbrowse_img.php?coord=1608278..1609144&genome=REL606&name=NC_012967&trackset=0&width=300&.png

REL606

NC_012967: 1442997..1443863
gbrowse_img.php?coord=1442997..1443863&genome=REL606&name=NC_012967&trackset=0&width=300&.png

REL606

NC_012967: 1110560..1111375
gbrowse_img.php?coord=1110560..1111375&genome=REL606&name=NC_012967&trackset=0&width=300&.png

BW2952

NC_012759: 2061039..2061905
gbrowse_img.php?coord=2061039..2061905&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

BW2952

NC_012759: 293722..294588
gbrowse_img.php?coord=293722..294588&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

BW2952

NC_012759: 469121..469987
gbrowse_img.php?coord=469121..469987&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

W3110

 

W3110: 314811..315677
gbrowse_img.php?coord=314811..315677&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

MG1655

8.43 minutes 

MG1655: 391829..390963
gbrowse_img.php?coord=390963..391829&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 391829..390963
gbrowse_img.php?coord=390963..391829&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

MG1655

12.21 minutes 

MG1655: 566361..567227
gbrowse_img.php?coord=566361..567227&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 566361..567227
gbrowse_img.php?coord=566361..567227&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

MG1655

23.57 minutes 

MG1655: 1094364..1093498
gbrowse_img.php?coord=1093498..1094364&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 1095563..1094697
gbrowse_img.php?coord=1094697..1095563&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

MG1655

46.74 minutes 

MG1655: 2168556..2169422
gbrowse_img.php?coord=2168556..2169422&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 2172669..2173535
gbrowse_img.php?coord=2172669..2173535&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 2259564..2260430
gbrowse_img.php?coord=2259564..2260430&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 997242..998108
gbrowse_img.php?coord=997242..998108&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

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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 typeLocationDescription
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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.

AlleleNt change(s)AA change(s)Phenotype: TypePhenotype: DescriptionReferenceAvailabilityComments
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Notes

Genetic Resources

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

ResourceResource TypeSourceNotes/Reference

Plasmid clone

Shigen

PMID:16769691

Status:

Primer 1:

Primer 2:

zef-3129::Tn10

Linked marker

CAG12099 = CGSC7397[4]

est. P1 cotransduction: % [5]
Synonyms:zee-3129::Tn10

zbd-3104::Tn10

Linked marker

CAG12021 = CGSC7344[4]

est. P1 cotransduction: 78% [5]
Synonyms:zbc-3105::Tn10, zbd-3105::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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:G7126

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0372

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C1224

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:Z1573

ASAP (EcoliWikiPage)

ASAP:ABE-0001030

ASAP (EcoliWikiPage)

ASAP:ABE-0001277

ASAP (EcoliWikiPage)

ASAP:ABE-0001857

ASAP (EcoliWikiPage)

ASAP:ABE-0003475

ASAP (EcoliWikiPage)

ASAP:ABE-0006919


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Notes

Links

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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

InsF

Synonyms

IS3 element protein InsF[1], DLP12 prophage; IS3 element protein InsF[1], B0372[3][1], Tra5-1[3][1], Tra5-4[3][1], B0299[3][1], B0541[3][1], B1026[3][1], B2089[3][1], Tra5-2[3][1], Tra5-3[3][1], Tra5-5[3][1], InsF-1[3][1], InsF-2[3][1], InsF-3[3][1], InsF-4[3][1], InsF-5[3][1]

Product description

IS3 element protein InsF[3][2]

EC number (for enzymes)


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Notes

Function

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Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

QualifierGO IDGO term nameReference(s)Evidence Codewith/fromAspectNotesStatus

GO:0003676

nucleic acid binding

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012337

F

Seeded from EcoCyc [6]

complete

GO:0003677

DNA binding

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR001584
SP_KW:KW-0238

F

Seeded from EcoCyc [6]

complete

GO:0006310

DNA recombination

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0233

P

Seeded from EcoCyc [6]

complete

GO:0006313

transposition, DNA-mediated

GO_REF:0000004
GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0814
SP_KW:KW-0815

P

Seeded from EcoCyc 12.5 [7]

complete

GO:0015074

DNA integration

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001584

P

Seeded from EcoCyc [6]

complete

GO:0032196

transposition

GO_REF:0000004
GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0814
SP_KW:KW-0815

P

Seeded from EcoCyc [6]

complete

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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner TypePartnerNotesReferencesEvidence
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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

CompartmentDescriptionEvidenceSourceNotes
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Notes

Structure and Physical Properties

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Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Sequence

at EcoCyc 

 




Length





Mol. Wt





pI





Extinction coefficient










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Domains/Motifs/Modification Sites





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TypeResiduesDescriptionNotesReferences




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Structure

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Structures






Models


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  Structure figures 






 Notes
 Gene Product Resources
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Resource typeSourceNotes/Reference




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 Accessions in Other Databases


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







DatabaseAccessionNotes






EcoCyc (EcoliWiki Page) 




EcoCyc:G7126-MONOMER









UniProt (EcoliWiki Page) 




UniProt:P05822









PFAM (EcoliWiki Page) 




PFAM:PF00665









RefSeq (EcoliWiki Page) 




RefSeq:NP_416593









ECOO157CYC (EcoliWiki Page) 




ECOO157CYC:Z1573-MONOMER












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 Expression


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 Overview


This is a placeholder for a summary statement on how expression of this gene product is regulated.  You can help EcoliWiki by becoming a user and writing/editing this statement.







 Cellular Levels


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See Help:Cellular levels







MoleculeOrganism or StrainCellular levelUnitsMediumTemperature °COther (e.g. anaerobic)Growth rateAssay usedNotesReference(s)




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 Notes


 Transcription and Transcriptional Regulation


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See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.







Transcription unit(s)






eaeH 








insEF-2 








insEF-3 








insEF-4 








insEF-5 






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Figure courtesy of RegulonDB








 Notes


This is a placeholder for a summary statement about how transcription of this gene is regulated.  You can help EcoliWiki by becoming a user and writing/editing this statement. 




 Translation and Regulation of Translation


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gbrowse_img.php?coord=314791..314831&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein&width=400&figure=Nterm&.png

This picture shows the sequence around the N-terminus. 




 Notes


This is a placeholder for a summary statement about how translation of this gene product is regulated.  You can help EcoliWiki by becoming a user and writing/editing this statement.



 Turnover and Regulation of Turnover






 Notes


 This is a placeholder for a summary statement about turnover of this gene product.  You can help EcoliWiki by becoming a user and writing/editing this statement.



 Experimental


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Mutations Affecting Expression
See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.







Allele NameMutationPhenotypeReference




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Expression Studies
See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.







TypeReferenceNotes






microarray




GEO Profiles:b0372 (EcoliWiki Page)




NCBI GEO profiles for insF-5 








microarray 




GenExpDB:b0372 (EcoliWiki Page) 




Summary of data for insF-5 from multiple microarray studies  






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Expression Resources
See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.







Resource NameResource TypeDescriptionSourceNotes




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 Accessions Related to insF-5 Expression


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DatabaseAccessionNotes






EcoCyc (EcoliWiki Page) 




EcoCyc:G7126









EcoliGenExpDB (EcoliWiki Page) 




EcoliGenExpDB:b0372












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 Evolution


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 Homologs in Other Organisms


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See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.







OrganismHomologs (Statistics)Comments






Shigella flexneri  




S1093 




From SHIGELLACYC 








E. coli O157 




Z1573 




From ECOO157CYC 






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 Do-It-Yourself Web Tools







 Notes


 Families


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DatabaseAccessionNotes






PFAM (EcoliWiki Page) 




PFAM:PF00665












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 Notes


 Links


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 References


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



  1. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 1.13 1.14 1.15 1.16 1.17 1.18 1.19 1.20 1.21 1.22 1.23 1.24 1.25 1.26 1.27 1.28 1.29 1.30 1.31 1.32 1.33 1.34 1.35 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)  
    2. 

  2. ↑ 2.0 2.1 2.2 2.3 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7  
    3. 

  3. ↑ 3.00 3.01 3.02 3.03 3.04 3.05 3.06 3.07 3.08 3.09 3.10 3.11 3.12 3.13 3.14 3.15 3.16 3.17 3.18 3.19 3.20 3.21 3.22 3.23 3.24 3.25 3.26 3.27 3.28 3.29 3.30 3.31 3.32 3.33 3.34 3.35 3.36 3.37 3.38 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7  
    4. 

  4. ↑ 4.0 4.1 CGSC: The Coli Genetics Stock Center  
    5. 

  5. ↑ 5.0 5.1 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).  
    6. 

  6. ↑ 6.0 6.1 6.2 6.3 6.4 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70  
    7. 

  7. ↑ EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7  


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