insF-5:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

Quickview

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See Help:Quickview for help with entering information in the Quickview table.

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

<GO_nr />

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

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

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See Help:Quickview for help with entering information in the Quickview table.

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.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

6.79 minutes 

MG1655: 314811..315677
<gbrowseImage> name=NC_000913:314811..315677 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2883130..2883936
<gbrowseImage> name=NC_012967:2883130..2883936 source=REL606 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1615832..1616698
<gbrowseImage> name=NC_012967:1615832..1616698 source=REL606 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1608278..1609144
<gbrowseImage> name=NC_012967:1608278..1609144 source=REL606 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1442997..1443863
<gbrowseImage> name=NC_012967:1442997..1443863 source=REL606 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1110560..1111375
<gbrowseImage> name=NC_012967:1110560..1111375 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2061039..2061905
<gbrowseImage> name=NC_012759:2061039..2061905 source=BW2952 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 293722..294588
<gbrowseImage> name=NC_012759:293722..294588 source=BW2952 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 469121..469987
<gbrowseImage> name=NC_012759:469121..469987 source=BW2952 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 997242..998108
<gbrowseImage> name=NC_012759:997242..998108 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 314811..315677
<gbrowseImage> name=NC_007779:314811..315677 source=W3110 preset=GeneLocation </gbrowseImage>

MG1655

8.43 minutes 

MG1655: 391829..390963
<gbrowseImage> name=NC_000913:390963..391829 source=ecoli preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 391829..390963
<gbrowseImage> name=NC_007779:390963..391829 source=W3110 preset=GeneLocation </gbrowseImage>

MG1655

12.21 minutes 

MG1655: 566361..567227
<gbrowseImage> name=NC_000913:566361..567227 source=ecoli preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 566361..567227
<gbrowseImage> name=NC_007779:566361..567227 source=W3110 preset=GeneLocation </gbrowseImage>

MG1655

23.57 minutes 

MG1655: 1094364..1093498
<gbrowseImage> name=NC_000913:1093498..1094364 source=ecoli preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1095563..1094697
<gbrowseImage> name=NC_007779:1094697..1095563 source=W3110 preset=GeneLocation </gbrowseImage>

MG1655

46.74 minutes 

MG1655: 2168556..2169422
<gbrowseImage> name=NC_000913:2168556..2169422 source=ecoli preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2172669..2173535
<gbrowseImage> name=NC_007779:2172669..2173535 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2259564..2260430
<gbrowseImage> name=NC_010473:2259564..2260430 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
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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
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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

Plasmid clone

Shigen

PMID:16769691

Status:

Primer 1:

Primer 2:

3E3

Kohara Phage

Genobase

PMID:3038334

9G4

Kohara Phage

Genobase

PMID:3038334

6E2

Kohara Phage

Genobase

PMID:3038334

2C4

Kohara Phage

Genobase

PMID:3038334

23E10

Kohara Phage

Genobase

PMID:3038334

1E12

Kohara Phage

Genobase

PMID:3038334

9G7

Kohara Phage

Genobase

PMID:3038334

1H4

Kohara Phage

Genobase

PMID:3038334

10H4

Kohara Phage

Genobase

PMID:3038334

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.

Database Accession Notes

EcoCyc (EcoliWiki Page)

ECOCYC:G6169

Escherichia coli str. K-12 substr. MG1655

EcoGene (EcoliWiki Page)

EcoGene:EG40006

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:944948

Escherichia coli str. K-12 substr. MG1655

EcoCyc (EcoliWiki Page)

ECOCYC:G6223

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945036

Escherichia coli str. K-12 substr. MG1655

EcoCyc (EcoliWiki Page)

ECOCYC:G6297

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947988

Escherichia coli str. K-12 substr. MG1655

EcoCyc (EcoliWiki Page)

ECOCYC:G6533

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945587

Escherichia coli str. K-12 substr. MG1655

EcoCyc (EcoliWiki Page)

ECOCYC:G7126

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946629

Escherichia coli str. K-12 substr. MG1655

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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] , ECK0299, b0299, b0372, b0541, b1026, b2089

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.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
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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 Type Partner Notes References Evidence
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Notes

Localization

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

Compartment Description Evidence Reference/Source Notes
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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.

Name
Sequence

at EcoCyc 

 




Length






Mol. Wt






pI






Extinction coefficient












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Domains/Motifs/Modification Sites





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







Type
Residues
Description
Notes
References





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<motif_map/>










Structure

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








Structures



<beststructure>
gene=insF-5
taxon=562,83333
</beststructure>






Models



View models at:








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Structure figures




Notes


Gene Product Resources


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Resource type
Source
Notes/Reference





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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






NCBI (Protein) (EcoliWiki Page)





GI:16128284





Escherichia coli str. K-12 substr. MG1655 








NCBI (Protein) (EcoliWiki Page)





GeneID:944948





Escherichia coli str. K-12 substr. MG1655 








NCBI (Protein) (EcoliWiki Page)





GI:16128357





Escherichia coli str. K-12 substr. MG1655 








NCBI (Protein) (EcoliWiki Page)





GeneID:945036





Escherichia coli str. K-12 substr. MG1655 








NCBI (Protein) (EcoliWiki Page)





GI:16128524





Escherichia coli str. K-12 substr. MG1655 








NCBI (Protein) (EcoliWiki Page)





GeneID:947988





Escherichia coli str. K-12 substr. MG1655 








NCBI (Protein) (EcoliWiki Page)





GI:16128990





Escherichia coli str. K-12 substr. MG1655 








NCBI (Protein) (EcoliWiki Page)





GeneID:945587





Escherichia coli str. K-12 substr. MG1655 








NCBI (Protein) (EcoliWiki Page)





GI:16130028





Escherichia coli str. K-12 substr. MG1655 








NCBI (Protein) (EcoliWiki Page)





GeneID:946629





Escherichia coli str. K-12 substr. MG1655 








ASAP (EcoliWiki Page)





ASAP:ABE-0001030





Escherichia coli str. K-12 substr. MG1655 








EcoCyc (EcoliWiki Page)





ECOCYC:G6169





Escherichia coli str. K-12 substr. MG1655 








EcoGene (EcoliWiki Page)





EcoGene:EG40006





Escherichia coli str. K-12 substr. MG1655 








NCBI (Gene) (EcoliWiki Page)





GeneID:944948





Escherichia coli str. K-12 substr. MG1655 








ASAP (EcoliWiki Page)





ASAP:ABE-0001277





Escherichia coli str. K-12 substr. MG1655 








EcoCyc (EcoliWiki Page)





ECOCYC:G6223





Escherichia coli str. K-12 substr. MG1655 








NCBI (Gene) (EcoliWiki Page)





GeneID:945036





Escherichia coli str. K-12 substr. MG1655 








ASAP (EcoliWiki Page)





ASAP:ABE-0001857





Escherichia coli str. K-12 substr. MG1655 








EcoCyc (EcoliWiki Page)





ECOCYC:G6297





Escherichia coli str. K-12 substr. MG1655 








NCBI (Gene) (EcoliWiki Page)





GeneID:947988





Escherichia coli str. K-12 substr. MG1655 








ASAP (EcoliWiki Page)





ASAP:ABE-0003475





Escherichia coli str. K-12 substr. MG1655 








EcoCyc (EcoliWiki Page)





ECOCYC:G6533





Escherichia coli str. K-12 substr. MG1655 








NCBI (Gene) (EcoliWiki Page)





GeneID:945587





Escherichia coli str. K-12 substr. MG1655 








ASAP (EcoliWiki Page)





ASAP:ABE-0006919





Escherichia coli str. K-12 substr. MG1655 








EcoCyc (EcoliWiki Page)





ECOCYC:G7126





Escherichia coli str. K-12 substr. MG1655 








NCBI (Gene) (EcoliWiki Page)





GeneID:946629





Escherichia coli str. K-12 substr. MG1655 







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Notes


Links


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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







Molecule
Organism or Strain
Value
Units
Experimental Conditions
Assay used
Notes
Reference(s)






Protein





E. coli K-12 MG1655





1a





molecules/cell/generation





  • Medium: MOPS Complete
    • 

  • Temperature (°C):  37
    • 

  • Doubling time (min):
    • 

  • *Growth phase:
    • 

  • OD:
    • 

  • other:




Ribosome Profiling





Low confidence in the sequencing data set.





PMID: 24766808 








Protein





E. coli K-12 MG1655





0a





molecules/cell/generation





  • Medium: MOPS Minimal
    • 

  • Temperature (°C):  37
    • 

  • Doubling time (min):
    • 

  • *Growth phase:
    • 

  • OD:
    • 

  • other:




Ribosome Profiling





Low confidence in the sequencing data set.





PMID: 24766808 








Protein





E. coli K-12 MG1655





29a





molecules/cell/generation





  • Medium: MOPS Complete without Methionine
    • 

  • Temperature (°C):  37
    • 

  • Doubling time (min):
    • 

  • *Growth phase:
    • 

  • OD:
    • 

  • other:




Ribosome Profiling





Low confidence in the sequencing data set.





PMID: 24766808 







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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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<gbrowseImage>
name=NC_000913:314791..314831
source=MG1655
type=Gene+DNA_+Protein
preset=Nterminus
</gbrowseImage>
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


</protect>



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 Name
Mutation
Phenotype
Reference





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







Type
Reference
Notes






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 Name
Resource Type
Description
Source
Notes





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<protect>



Notes


Accessions Related to insF-5 Expression


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







Database
Accession
Notes






EcoCyc (EcoliWiki Page) 





EcoCyc:G7126










EcoliGenExpDB (EcoliWiki Page) 





EcoliGenExpDB:b0372














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Notes


Links


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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.







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







Database
Accession
Notes






Superfamily (EcoliWiki Page)





SUPERFAMILY:53098










Superfamily (EcoliWiki Page)





SUPERFAMILY:53098










Superfamily (EcoliWiki Page)





SUPERFAMILY:53098










Superfamily (EcoliWiki Page)





SUPERFAMILY:53098










Superfamily (EcoliWiki Page)





SUPERFAMILY:53098














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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. 



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