<p>If you look at the Appendix from <a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC306349/" rel="nofollow noreferrer">https://www.ncbi.nlm.nih.gov/pmc/articles/PMC306349/</a>, there is a table of sequences that were likely used to construct the sequence logo, at least partially, from the 5' end to the stereotyped ATG subsequence.</p>

<p>It's not in a nice format amenable to use directly with weblogo (like FASTA), but with some programming/elbow grease it might be rendered into that form, which you can then use.</p>

<p>Generally, you might investigate the supplementary materials of these and related papers, to see if you might something directly usable.</p>

CC BY-SA 4.0
2019-08-02T00:14:54.600Z
Thanks for your answer. By "Appendix", do you mean the "Selected References" part, or somewhere else? I didn't find the Appendix section.
fu DL
CC BY-SA 4.0
2019-08-02T00:35:24.390Z
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC306349/?page=9
Alex Reynolds
CC BY-SA 4.0
2019-08-02T00:39:41.600Z
You might go through the examples here, which include some Kozak sequence data: http://teaching.bioinformatics.dtu.dk/teaching/index.php/ExSeqLogos
Alex Reynolds
CC BY-SA 4.0
2019-08-02T00:41:12.243Z
If you need to generate that exact logo in your question, then you'll need the sequence data from whoever made it.
Alex Reynolds
CC BY-SA 4.0
2019-08-01T23:55:44.227Z
2019-08-02T16:03:40.330Z
2019-08-02T16:03:40.330Z
Alex Reynolds
<p>this is A <a href="https://en.wikipedia.org/wiki/Kozak_consensus_sequence" rel="nofollow noreferrer">sequence logo</a> showing the most conserved bases around the initiation codon from 10000 human mRNAs.</p>

<p><a href="https://i.sstatic.net/Xq8l9.png" rel="nofollow noreferrer"><img src="https://i.sstatic.net/Xq8l9.png" alt="enter image description here"></a></p>

<p>I would like to reproduce this sequence logo. How can I get the sequences? which database should I use? </p>

<p>this search is apparently wrong, since I don't know the right way.</p>

<p><a href="https://www.ncbi.nlm.nih.gov/nuccore/?term=10000+human+mRNAs" rel="nofollow noreferrer">https://www.ncbi.nlm.nih.gov/nuccore/?term=10000+human+mRNAs</a></p>

CC BY-SA 4.0
2019-08-01T12:33:39.500Z
The figure has no reference to any study, only a [website](http://weblogo.berkeley.edu). However on that website no mention of this study. Best thing is to send an email to  weblogo, and ask how they made the figure (I have seen an email address on their site).
benn
<phylogenetics><ngs><sequence-analysis>
How to reproduce this specific sequence logo from 10 000 human mRNAs?
# How to reproduce this specific sequence logo from 10 000 human mRNAs?

(Asked by: username_0 on 2019-08-01)

this is A [sequence logo](https://en.wikipedia.org/wiki/Kozak_consensus_sequence) showing the most conserved bases around the initiation codon from 10000 human mRNAs.

[![enter image description here](https://i.sstatic.net/Xq8l9.png)](https://i.sstatic.net/Xq8l9.png)

I would like to reproduce this sequence logo. How can I get the sequences? which database should I use?

this search is apparently wrong, since I don't know the right way.

<https://www.ncbi.nlm.nih.gov/nuccore/?term=10000+human+mRNAs>

**Tags:** phylogenetics, ngs, sequence-analysis
> **Comments:**
> **username_1**: The figure has no reference to any study, only a [website](http://weblogo.berkeley.edu). However on that website no mention of this study. Best thing is to send an email to  weblogo, and ask how they made the figure (I have seen an email address on their site).  

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## 1 answers

### Answer by username_2 on 2019-08-01. Score: 1

If you look at the Appendix from <https://www.ncbi.nlm.nih.gov/pmc/articles/PMC306349/>, there is a table of sequences that were likely used to construct the sequence logo, at least partially, from the 5' end to the stereotyped ATG subsequence.

It's not in a nice format amenable to use directly with weblogo (like FASTA), but with some programming/elbow grease it might be rendered into that form, which you can then use.

Generally, you might investigate the supplementary materials of these and related papers, to see if you might something directly usable.

> **Comments:**
> **username_0**: Thanks for your answer. By "Appendix", do you mean the "Selected References" part, or somewhere else? I didn't find the Appendix section.  
> **username_2**: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC306349/?page=9  
> **username_2**: You might go through the examples here, which include some Kozak sequence data: http://teaching.bioinformatics.dtu.dk/teaching/index.php/ExSeqLogos  
> **username_2**: If you need to generate that exact logo in your question, then you'll need the sequence data from whoever made it.  

---

