Answers.Body: <p>The virus Rp3 stands for Rhi pea isolated in China in 2004.</p>
  <p>The trees is <a href="https://jvi.asm.org/content/84/21/11336" rel="nofollow noreferrer">here</a> and groups with the Bulgarian sarbecoviruses and is closely related to the African sarbecoviruses. Thus although it is a Chinese sarbecovirus is not with the &quot;Chinease originating&quot; clade as is SARS and Covid-19.</p>
  <p>Thats why the more mysterious ORFs ORF13 and 14 are missing, because over notable genetic distances these genes along with ORF10 are present/absent. This is a common feature of the betacoronaviruses.</p>
  <p>In summmary this virus is notably distance from the major human pathogenic SARS/covid-19 viruses. Thus the absence of these auxilary genes isn't really surprising.</p>
  <p>Its the very last taxa on the SARS-related viruses clade (monophyly) and is in a different group to SARS, which is the Beta-1 clade on this most excellent paper.</p>
  <hr />
  <p>To answer the comment. They are outgroups, basically ancestral to COVID-19 and SARS-1 clade. So they lost these genes whilst the ingroup including COVID-109 and SARS-1 retained ORF13, 14 ... but I think lost ORF10 from memory</p>
  <p><a href="https://i.sstatic.net/L2tCm.jpg" rel="nofollow noreferrer"><img src="https://i.sstatic.net/L2tCm.jpg" alt="enter image description here" /></a></p>
  
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Answers.CreationDate: 2020-11-23T22:35:54.273Z
Answers.Text: "Thats why the more mysterious ORFs ORF13 and 14 are missing, because over notable genetic distances these genes along with ORF10 are present/absen"... the distance of what? >70% the same
Answers.UserDisplayName: RosLuP
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Answers.CreationDate: 2020-11-23T22:37:45.217Z
Answers.Text: 70% is a lot, post modified above.
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Answers.CreationDate: 2020-11-23T21:35:31.473Z
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Answers.LastEditDate: 2020-11-23T22:39:37.700Z
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Body: <p>I'am comparing bats coronavirus with Sars2, i.e. COVID-19. I have one question...</p>
  <ul>
  <li>one Bat Sars coronaviurs identify in GenBank as DQ071615.1 has the ORF13(28122..28415) and ORF14(28572..28784) proteins</li>
  <li>Sars2 identify in GenBank as MN908947_3, has range 28284..28577
  not labeled as ORF13 and the same 28734..28955 is not labeled as ORF14?</li>
  </ul>
  <p>The ORF13(28122..28415) of Bat coronavirus and  PSEUDO_ORF13(28284..28577) of sars2 share 72% homology
  and ORF14(28572..28784) of Bat coronavirus and  PSEUDO_ORF14(28734..28955) of sars2 share 75% homology</p>
  <hr />
  <p>This seems one publication for ORF14 and ORF13 in Bat Viruses and relations in Sars2 <a href="https://www.hindawi.com/journals/bmri/2020/7234961/" rel="nofollow noreferrer">here</a></p>
  <p>The author say that ORF14 in Sars2 is all contained in N protein...
  And ORF13 is know in that above link as ORF9B
  and in that written is said ORF9B is implied in immunitary innate suppression...</p>
  
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2020-11-23T12:10:52.723Z
Comments.Text: Key to the answer is whether Rp3 is a Chinese bat virus ... I think the virus was originally part of this study https://science.sciencemag.org/content/310/5748/676 If you can tell me its country of origin .. if its Europe or Africa that would explain it.
Comments.UserDisplayName: M__
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2020-11-23T21:12:05.053Z
Comments.Text: i remember only i was surprised orf1ab was so different from sars2. And has in orf3 one 7 letter amminoacid chain that i was sarching in common with ebola (if i remember well)
Comments.UserDisplayName: RosLuP
Tags: <covid-19><sars-cov-2><coronavirus>
Title: Why ORF13 and ORF14 of Bat Sars coronavirus Rp3 have no corrispondence in Sars2?
ThreadText: # Why ORF13 and ORF14 of Bat Sars coronavirus Rp3 have no corrispondence in Sars2?
  
  (Asked by: username_0 on 2020-11-23)
  
  I'am comparing bats coronavirus with Sars2, i.e. COVID-19. I have one question...
  
  * one Bat Sars coronaviurs identify in GenBank as DQ071615.1 has the ORF13(28122..28415) and ORF14(28572..28784) proteins
  * Sars2 identify in GenBank as MN908947\_3, has range 28284..28577
    not labeled as ORF13 and the same 28734..28955 is not labeled as ORF14?
  
  The ORF13(28122..28415) of Bat coronavirus and PSEUDO\_ORF13(28284..28577) of sars2 share 72% homology
  and ORF14(28572..28784) of Bat coronavirus and PSEUDO\_ORF14(28734..28955) of sars2 share 75% homology
  
  ---
  
  This seems one publication for ORF14 and ORF13 in Bat Viruses and relations in Sars2 [here](https://www.hindawi.com/journals/bmri/2020/7234961/)
  
  The author say that ORF14 in Sars2 is all contained in N protein...
  And ORF13 is know in that above link as ORF9B
  and in that written is said ORF9B is implied in immunitary innate suppression...
  
  **Tags:** covid-19, sars-cov-2, coronavirus
  
  > **Comments:**
  > **username_1**: Key to the answer is whether Rp3 is a Chinese bat virus ... I think the virus was originally part of this study https://science.sciencemag.org/content/310/5748/676 If you can tell me its country of origin .. if its Europe or Africa that would explain it.  
  > **username_0**: i remember only i was surprised orf1ab was so different from sars2. And has in orf3 one 7 letter amminoacid chain that i was sarching in common with ebola (if i remember well)  
  
  ---
  
  ## 1 answers
  
  ### Answer by username_1 on 2020-11-23. Score: 1
  
  The virus Rp3 stands for Rhi pea isolated in China in 2004.
  
  The trees is [here](https://jvi.asm.org/content/84/21/11336) and groups with the Bulgarian sarbecoviruses and is closely related to the African sarbecoviruses. Thus although it is a Chinese sarbecovirus is not with the "Chinease originating" clade as is SARS and Covid-19.
  
  Thats why the more mysterious ORFs ORF13 and 14 are missing, because over notable genetic distances these genes along with ORF10 are present/absent. This is a common feature of the betacoronaviruses.
  
  In summmary this virus is notably distance from the major human pathogenic SARS/covid-19 viruses. Thus the absence of these auxilary genes isn't really surprising.
  
  Its the very last taxa on the SARS-related viruses clade (monophyly) and is in a different group to SARS, which is the Beta-1 clade on this most excellent paper.
  
  ---
  
  To answer the comment. They are outgroups, basically ancestral to COVID-19 and SARS-1 clade. So they lost these genes whilst the ingroup including COVID-109 and SARS-1 retained ORF13, 14 ... but I think lost ORF10 from memory
  
  [![enter image description here](https://i.sstatic.net/L2tCm.jpg)](https://i.sstatic.net/L2tCm.jpg)
  
  > **Comments:**
  > **username_0**: "Thats why the more mysterious ORFs ORF13 and 14 are missing, because over notable genetic distances these genes along with ORF10 are present/absen"... the distance of what? >70% the same  
  > **username_1**: 70% is a lot, post modified above.  
  
  ---
  
  