Use the Map viewer to find gene sequences and mRNA sequences

Use the Map viewer to find gene sequences, mRNA sequences, promoters (Promoter)

NCBI (National Center for Biotechnology Information) refers to the National Center for Biotechnology Information. Understanding the natural but subtle language about life cells is a requirement of modern molecular biology.

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NCBI first created the GenBank database. While focusing on the development of GenBank, the Entrez database retrieval system was developed in 1991. The system integrates sequence information from databases such as GenBank, EMBL, PIR, and SWISS-PROT, as well as literature information on MEDLINE-related sequences, and organically combines them through related links. NCBI also provides other databases, including online human Mendelian inheritance (OMIM), molecular model database (MMDB) for three-dimensional protein structures, human gene sequence integration (UniGene), human genome map (GMHG), and biological taxonomy (Taxonomy). database. Shanghai Chuangsai Technology Co., Ltd. provides Porcine Interleukin 6Elisa Kit, Porcine Interleukin-6, IL-6 ELISA Kit, product number: LH-E10103PO-96T, and the price is 1530 yuan.

Let's take the human IL6 (interleukin 6) as an example to explain the specific steps.

1. Open the Map viewer page at http://select the species in the search drop-down menu and fill in your target gene for for. The operation is as shown:

Use the Map viewer to find gene sequences and mRNA sequences

2. Click on "GO" to display the following page:

Use the Map viewer to find gene sequences and mRNA sequences

3. In the lower right corner of the second step, there is a Quick Filter. Below are several check boxes for you to select. Tick the small box in front of the Gene and click Filter. The following figure appears:

Use the Map viewer to find gene sequences and mRNA sequences

4. Click on the "Genes seq" corresponding to the first sequence of the above three sequences (ie reference), and a new page appears. The bottom of the page is:

Use the Map viewer to find gene sequences and mRNA sequences

5. Click “Download/View Sequence/Evidence” in the above figure to download the viewing sequence and other functions. The result is as shown:

Use the Map viewer to find gene sequences and mRNA sequences

First, a brief description of the above picture, behind the Sequence Format is a drop-down selection menu, the default is FASTA format, and one is GenBank format. I recommend that you choose the GenBnak format because this format provides a lot of information about the gene, while the FASTA format only has the gene sequence.

6. Select GenBank after Sequence Format, and then click on Display below. The information and sequence of the target gene will appear in front of you. In the above-mentioned open web page, you can see the gene length, the gene sequence, and how the gene is reported.

Use the Map viewer to find gene sequences and mRNA sequences

In the figure: mRNA join (3598..3678,3841..4031,5090..5203,5911..6057, 7803..8394) This represents the transcribed region from the 3598 position of the gene, which we often say The mRNA fragment, due to the presence of introns, is divided into several segments in the DNA sequence.

CDS join (3660..3678,3841..4031,5090..5203,5911..6057, 7803..7970)

CDS represents the coding sequence, ie the protein coding region is from 3660 (ATG), and the CDS region is also discontinuous due to splicing.

Having said that, many friends may have already understood where the promoter is the promoter region: the transcription initiation site is preceded by the regulatory region of the gene, and the promoter region has no obvious positional definition. Everyone just guesses its general location. If you want to study the promoter region, it is recommended to select 2000 bases before the transcription start site for research. This is generally the default. Of course, if you think that the length is too long to study, you can only study the thousand bases from -1000 to 0, because in general, the mutation of the promoter region is in this region.

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