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fixed the notion that there is difficulty in
reading possible ORF's in eukaryotic mRNA. It is normally monocistronic, so usually only a single ORF is contained therefore looking for the longest possible gene sequence between a start and stop codon should give you the correct amino acid sequence. Active contributor 17:27, 20 March 2007 (UTC)
It is very important to note that not all ORFs ever encode a protein. There are ORFs within ORFs depending on the reading frame you look at. There are ORFs in non-coding regions of the genome. ORFs simply mean that you have a start codon and a stop codon in the same reading frame. They can be used as an initial filter to find potential genes, but many ORFs found this way are false positives. Any good gene finding algorithm looks at much more than just whether or not there is a stretch of DNA in the same reading frame with a start followed by a stop codon. —Preceding unsigned comment added by Johnstjohn ( talk • contribs) 19:23, 28 October 2010 (UTC)
Is there any source for the meaning of the word "open"? - Huggie ( talk) 11:10, 28 October 2009 (UTC)
The article claims that the "open" in ORF means that there is no stop codon. Surely this is incorrect! An ORF as far as I know extends from a start to a stop codon. So if in the example only one of the three frames has a stop codon then that one is the only ORF - right?
[1] which is even referenced in the article also says: "An open reading frame starts with an atg (Met) in most species and ends with a stop codon (taa, tag or tga)."
-- 203.109.144.209 23:11, 16 May 2007 (UTC)
Yes, the article is incorrect, on several points. The "open" means that there is no stop codon encoded in the frame.
The earliest citation I can find is that an open reading frame is "a long run of amino acid codons before the appearance of a terminator codon" R.F. Doolittle, Of URFs and ORFs, 1986; a start codon is not required for the definition of an ORF. The citation [2] above also ignores the real possibility that a start codon other than ATG may be used. In addition, the exons of a eukaryotic gene, after the first exon, although they do not (necessarily) contain a functioning in-frame start codon, are also contained within ORFs.
An ORF is simply a contiguous section of nucleotide sequence that when, read in frame, contains no stop codons.
A portion of a reading frame that runs from a start to a stop codon is just a (putative) coding sequence ( CDS, which page incidentally also provides an incorrect definition of coding sequence). Note that since many eukaryotic genes are intronic, you may not find a contiguous run from a start to a stop codon, and not all portions of a gene are necessarily used for coding (splice variation), nor must they all lie in the same frame.
143.234.97.119 ( talk) 08:17, 20 October 2008 (UTC)
An ORF must contain a start codon, which defines the reading frame, and necessarily ends at a stop codon. Example 2 at the bottom of the introduction to the current revision of the article is not in frame. 24.240.37.200 ( talk) 02:34, 28 October 2010 (UTC)
There is no explanation on what is going on in this image. That would be really helpful.
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Cheers.— cyberbot II Talk to my owner:Online 21:56, 28 February 2016 (UTC)
Currently (October 2018) the text reads:
"Since DNA is interpreted in groups of three nucleotides (codons), a DNA strand has three distinct reading frames.[citation needed]"
I do not understand what "cituation" is necessary. It has been known for decades that a codon is interpreted at the Ribosome into one of the 20/22 aminoacids; or a stop codon. What citation is necessary? This information is already available (!) on wikipedia as-is in other articles. Here is the wikipedia link: /info/en/?search=Genetic_code#History
I suggest getting rid of the "citation needed" there. 2A02:8388:1604:CA80:F462:6A60:DEA:83A0 ( talk) 09:15, 8 October 2018 (UTC)
I was looking through the page history and saw this edit: diff. Is this vandalism? I don't know much about this stuff myself so I don't even know what's right or wrong here – but I do notice that the reference mentions DNA in the title. Can anyone help? Regards, DesertPipeline ( talk) 15:18, 25 February 2021 (UTC)
It's been partially changed back now by the person who edited it originally, but "amino acids" hasn't been changed back to "nucleotides" – ( diff). DesertPipeline ( talk) 06:21, 1 March 2021 (UTC)
![]() | This article is rated Start-class on Wikipedia's
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fixed the notion that there is difficulty in
reading possible ORF's in eukaryotic mRNA. It is normally monocistronic, so usually only a single ORF is contained therefore looking for the longest possible gene sequence between a start and stop codon should give you the correct amino acid sequence. Active contributor 17:27, 20 March 2007 (UTC)
It is very important to note that not all ORFs ever encode a protein. There are ORFs within ORFs depending on the reading frame you look at. There are ORFs in non-coding regions of the genome. ORFs simply mean that you have a start codon and a stop codon in the same reading frame. They can be used as an initial filter to find potential genes, but many ORFs found this way are false positives. Any good gene finding algorithm looks at much more than just whether or not there is a stretch of DNA in the same reading frame with a start followed by a stop codon. —Preceding unsigned comment added by Johnstjohn ( talk • contribs) 19:23, 28 October 2010 (UTC)
Is there any source for the meaning of the word "open"? - Huggie ( talk) 11:10, 28 October 2009 (UTC)
The article claims that the "open" in ORF means that there is no stop codon. Surely this is incorrect! An ORF as far as I know extends from a start to a stop codon. So if in the example only one of the three frames has a stop codon then that one is the only ORF - right?
[1] which is even referenced in the article also says: "An open reading frame starts with an atg (Met) in most species and ends with a stop codon (taa, tag or tga)."
-- 203.109.144.209 23:11, 16 May 2007 (UTC)
Yes, the article is incorrect, on several points. The "open" means that there is no stop codon encoded in the frame.
The earliest citation I can find is that an open reading frame is "a long run of amino acid codons before the appearance of a terminator codon" R.F. Doolittle, Of URFs and ORFs, 1986; a start codon is not required for the definition of an ORF. The citation [2] above also ignores the real possibility that a start codon other than ATG may be used. In addition, the exons of a eukaryotic gene, after the first exon, although they do not (necessarily) contain a functioning in-frame start codon, are also contained within ORFs.
An ORF is simply a contiguous section of nucleotide sequence that when, read in frame, contains no stop codons.
A portion of a reading frame that runs from a start to a stop codon is just a (putative) coding sequence ( CDS, which page incidentally also provides an incorrect definition of coding sequence). Note that since many eukaryotic genes are intronic, you may not find a contiguous run from a start to a stop codon, and not all portions of a gene are necessarily used for coding (splice variation), nor must they all lie in the same frame.
143.234.97.119 ( talk) 08:17, 20 October 2008 (UTC)
An ORF must contain a start codon, which defines the reading frame, and necessarily ends at a stop codon. Example 2 at the bottom of the introduction to the current revision of the article is not in frame. 24.240.37.200 ( talk) 02:34, 28 October 2010 (UTC)
There is no explanation on what is going on in this image. That would be really helpful.
Hello fellow Wikipedians,
I have just added archive links to one external link on
Open reading frame. Please take a moment to review
my edit. If necessary, add {{
cbignore}}
after the link to keep me from modifying it. Alternatively, you can add {{
nobots|deny=InternetArchiveBot}}
to keep me off the page altogether. I made the following changes:
When you have finished reviewing my changes, please set the checked parameter below to true or failed to let others know (documentation at {{
Sourcecheck}}
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This message was posted before February 2018.
After February 2018, "External links modified" talk page sections are no longer generated or monitored by InternetArchiveBot. No special action is required regarding these talk page notices, other than
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have permission to delete these "External links modified" talk page sections if they want to de-clutter talk pages, but see the
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(last update: 5 June 2024).
Cheers.— cyberbot II Talk to my owner:Online 21:56, 28 February 2016 (UTC)
Currently (October 2018) the text reads:
"Since DNA is interpreted in groups of three nucleotides (codons), a DNA strand has three distinct reading frames.[citation needed]"
I do not understand what "cituation" is necessary. It has been known for decades that a codon is interpreted at the Ribosome into one of the 20/22 aminoacids; or a stop codon. What citation is necessary? This information is already available (!) on wikipedia as-is in other articles. Here is the wikipedia link: /info/en/?search=Genetic_code#History
I suggest getting rid of the "citation needed" there. 2A02:8388:1604:CA80:F462:6A60:DEA:83A0 ( talk) 09:15, 8 October 2018 (UTC)
I was looking through the page history and saw this edit: diff. Is this vandalism? I don't know much about this stuff myself so I don't even know what's right or wrong here – but I do notice that the reference mentions DNA in the title. Can anyone help? Regards, DesertPipeline ( talk) 15:18, 25 February 2021 (UTC)
It's been partially changed back now by the person who edited it originally, but "amino acids" hasn't been changed back to "nucleotides" – ( diff). DesertPipeline ( talk) 06:21, 1 March 2021 (UTC)