malF:Gene: Difference between revisions

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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=633 Genobase]
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=633 Genobase]
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PMID:3038334
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[[:Category:Kohara_Phage:1F8|1F8]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=634 Genobase]
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PMID:3038334  
PMID:3038334  
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est. P1 cotransduction: 3% <ref name='LIB:Nichols_linked_Tn'/>  
est. P1 cotransduction: 3% <ref name='LIB:Nichols_linked_Tn'/>  
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[[:Category:Kohara_Phage:1F8|1F8]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=634 Genobase]
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PMID:3038334


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!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10555 EcoCyc:EG10555]
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[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
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[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB0550 EchoBASE:EB0550]
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[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])
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[http://chase.ou.edu/macro/searchlink.php?bnum=b4033 EcoliGenExpDB:b4033]
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[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])
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[http://BioCyc.org/ECOL199310/new-image?object=C5003 ECOL199310CYC:C5003]
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
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[http://ecogene.org/geneinfo.php?eg_id=EG10555 EcoGene:EG10555]
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[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])
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[http://BioCyc.org/ECOO157/new-image?object=MALF ECOO157CYC:MALF]
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[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
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[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/531 CGSC:531]
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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=0013195&formSubmitReturn=1 ASAP:ABE-0013195]
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Revision as of 20:38, 21 September 2011

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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

malF

Mnemonic

Maltose

Synonyms

ECK4025, b4033, JW3993[1]

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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

91.42 minutes, 91.42 minutes 

MG1655: 4243098..4241554
<gbrowseImage> name=NC_000913:4241554..4243098 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4224007..4222463
<gbrowseImage> name=NC_012967:4222463..4224007 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4180399..4181943
<gbrowseImage> name=NC_012759:4180399..4181943 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4248665..4247121
<gbrowseImage> name=AC_000091:4247121..4248665 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4342794..4341250
<gbrowseImage> name=NC_010473:4341250..4342794 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

ΔmalF (Keio:JW3993)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC10874[3]

malFP420A

P420A

No effect

seeded from UniProt:P02916

malFG380C,S

G380C,S

No growth on maltose

seeded from UniProt:P02916

malFE401A,C,K,L

E401A,C,K,L

Reduction of transport rate

seeded from UniProt:P02916

malFS403C,D,K,L

S403C,D,K,L

Reduction of transport rate

seeded from UniProt:P02916

malFG407A,P

G407A,P

No effect

seeded from UniProt:P02916

malFL334W

L334W

Ability to transport lactose in a saturable manner

seeded from UniProt:P02916

malFL372W

L372W

Growth on maltose but not on media containing either maltoheptaose or maltoheptaose plus maltose

seeded from UniProt:P02916

malFN376K,H

N376K,H

No growth on maltose

seeded from UniProt:P02916

malF3089::Tn10

Insertion at 4,242,342 bp in MG1655 (NC_000913)

adapted from Nichols et al.[4]

CAG12164 = CGSC7476[3]

Synonyms:

malF64(Oc)

CGSC:7076

ochre (UAA) mutation

malF55::Tn10

CGSC:9952

malF59::Tn5

CGSC:9960

malF3089::Tn10

PMID:2540407[5]

CGSC:40369

malF3180::Tn10kan

PMID:2540407[5]

CGSC:40372

ΔmalF729::kan

PMID:16738554[2]

CGSC:101732


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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

JW3993

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:GCCGATGTCATTAAAAAGAAACA

Primer 2:CCATCAAACTTCATTCGCGTGGC

7A4

Kohara Phage

Genobase

PMID:3038334[7]

1F8

Kohara Phage

Genobase

PMID:3038334[7]

thiC39::Tn10

Linked marker

CAG18500 = CGSC7472[3]

est. P1 cotransduction: 12% [4]
Synonyms:thi-39::Tn10

zje-2241::Tn10

Linked marker

CAG18427 = CGSC7481[3]

est. P1 cotransduction: 3% [4]

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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
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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. ↑ Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 Baba, T et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol. Syst. Biol. 2 2006.0008 PubMed
  3. ↑ 3.0 3.1 3.2 3.3 CGSC: The Coli Genetics Stock Center
  4. ↑ 4.0 4.1 4.2 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).
  5. ↑ 5.0 5.1 Singer, M et al. (1989) A collection of strains containing genetically linked alternating antibiotic resistance elements for genetic mapping of Escherichia coli. Microbiol. Rev. 53 1-24 PubMed
  6. ↑ 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
  7. ↑ 7.0 7.1 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

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