Cis Element:Phage lambda ori: Difference between revisions

Latest revision as of 08:40, 27 May 2013

Cis element summary table

Standard Name	Lambda ori
Synonyms
Function	Initiation control site for replication of the lambda genome
Location	within O gene
SO terms
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Notes

Location and Sequence

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Strain	Map location	Genome coordinates	Genome browsers	Sequence links
Phage Lambda (NC_001416)		NC_001416: 39034..39137	Gbrowse (Bacteriophage lambda)	FASTA Dump
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Notes

The lambda ori has 4 repeated segments (commonly referred to as 'iterons') located at the following coordinates^[1]:

- ori1 - nt 39034 - 39051
- ori2 - nt 39054 - 39071
- ori3 - nt 39078 - 39095
- ori4 - nt 39101 - 39118

Below is the location of each of the ori iteron (underlined) in the lambda genomic sequence ^[1] :

Lambda  nt39034  ATCCCTCAAA ACGAGGGAAA ATCCCCTAAAA CGAGGGATAA AACATCCCTC AAATTGGGGG ATTGCT  39100
Lambda  nt39101  ATCCCTCAAA ACAGGGGGAC ACAAAAGACA CTATTACAAA AGAAAAAAGA AAA   39153

Interactions

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Partner Type	Partner	Notes	References	Evidence
Protein	Phage lambda O protein		PMID:6264392^[2]	Purified O protein protects lambda DNA in the ori region from ExoIII nuclease digestion (FIgure 2) and DNase cleavage (Figure 4).
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Notes

Mutant alleles and phenotypes

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

Accessions

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

Database	Accession	Notes
EcoCyc	EcoCyc:	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:	Escherichia coli str. K-12 substr. MG1655
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Notes

References

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

↑ ^1.0 ^1.1 Moore, DD et al. () Sequence organization of the origins of DNA replication in lambdoid coliphages. Gene 14 91-101 PubMed
↑ Tsurimoto, T & Matsubara, K (1981) Purified bacteriophage lambda O protein binds to four repeating sequences at the lambda replication origin. Nucleic Acids Res. 9 1789-99 PubMed

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 |-
 !align=left {{table_heading_style}} |Standard Name
+||
+''Lambda ori''
 |-
 !align=left {{table_heading_style}} |Synonyms
+||
 |-
 !align=left {{table_heading_style}} |Function
+||
+Initiation control site for replication of the lambda genome
 |-
 !align=left {{table_heading_style}} |Location
+||
+within ''O'' gene
 |-
 !align=left {{table_heading_style}} |SO terms
+||
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 ****************************************************************************************** -->{{Gene_location_help}}
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 |- {{table_heading_style}}
 !|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
+|-
+|
+Phage Lambda (NC_001416)
+|
+|
+NC_001416: 39034..39137<br />{{GBrowseFigureByCoord|39024|39147|bacteriophage_lambda|NC_001416}}
+|
+{{GBrowseLink|bacteriophage_lambda|NC_001416|39034|39137|Gbrowse (Bacteriophage lambda)}}
+|
+{{GBrowseFastaLink|bacteriophage_lambda|NC_001416|39034|39137|FASTA Dump}}
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+|- class="tableEdit_footer"
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 |}
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 ===Notes===
+* The lambda ''ori'' has 4 repeated segments (commonly referred to as 'iterons') located at the following coordinates<ref name='PMID:6455332'/>:
+#* ori1 - nt 39034 - 39051
+#* ori2 - nt 39054 - 39071
+#* ori3 - nt 39078 - 39095
+#* ori4 - nt 39101 - 39118
+Below is the location of each of the ''ori'' iteron (underlined) in the lambda genomic sequence <ref name='PMID:6455332'/> :
+ <span style="font-size:larger;"><b>Lambda  nt39034  <u>ATCCCTCAAA ACGAGGGA</u>AA <u>ATCCCCTAAAA CGAGGGAT</u>AA AAC<u>ATCCCTC AAATTGGGGG ATTGCT</u>  39100
+ Lambda  nt39101  <u>ATCCCTCAAA ACAGGGGG</u>AC ACAAAAGACA CTATTACAAA AGAAAAAAGA AAA   39153 </b></span>
 == Interactions==
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 *
 ****************************************************************************************** -->{{Product_interactions_help}}
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 |- {{table heading style}}
 !|Partner Type!!Partner!!Notes!!References!!Evidence
+|-
+|
+Protein
+|
+Phage lambda O protein
+|
+|
+PMID:6264392
+|
+Purified O protein protects lambda DNA in the ''ori'' region from ExoIII nuclease digestion (FIgure 2) and DNase cleavage (Figure 4).
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 |- {{table_heading_style}}
 !|Allele!!Nt change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
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+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.164822.D4a3fc721c8fb1&page=164822&pagename={{FULLPAGENAMEE}}&type=0&template=Cis_Element_allele_table edit table] || || || || || ||
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 !|Resource!!Resource Type!!Source!!Notes/Reference
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 |- {{table_heading_style}}
 !|Database!!Accession!!Notes
+|-
+|
+[[EcoCyc]]
+|
+EcoCyc:
+|
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
+|-
+|
+[[EcoGene]]
+|
+EcoGene:
+|
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
+|-
+|
+[[RegulonDB]]
+|
+RegulonDB:
+|
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
+|-
+|
+[[EchoBASE]]
+|
+EchoBASE:
+|
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
+|-
+|
+[[ASAP]]
+|
+ASAP:
+|
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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 |}
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 {{BacktoTop}}
 {{RefHelp}}
-<references/>
+<references />
-===Categories===[[Category:Phage lambda:Cis_Element]]
+===Categories===
+[[Category:Phage lambda:Cis_Element]]

Cis Element:Phage lambda ori: Difference between revisions

Latest revision as of 08:40, 27 May 2013

Cis element summary table

Notes

Location and Sequence

Notes

Interactions

Notes

Mutant alleles and phenotypes

Notes

Genetic Resources

Notes

Accessions

Notes

References

Categories

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