0  structures 13  species 21  sequences

Family: Corona_package (RF00182)

Description: Coronavirus packaging signal


Wikipedia annotation Edit Wikipedia article

The Rfam group coordinates the annotation of Rfam families in Wikipedia. This family is described by a Wikipedia entry Coronavirus packaging signal. More...

This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.



There are various ways to view or download the seed alignments that we store. You can use a sequence viewer to look at them, or you can look at a plain text version of the sequence in a variety of different formats. More...

View options

You can view Rfam seed alignments in your browser in various ways. Choose the viewer that you want to use and click the "View" button to show the alignment in a pop-up window.


Formatting options

You can view or download Rfam seed alignments in several formats. Check either the "download" button, to save the formatted alignment, or "view", to see it in your browser window, and click "Generate".

Alignment format:


Download a gzip-compressed, Stockholm-format file containing the seed alignment for this family. You may find RALEE useful when viewing sequence alignments.

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We're happy receive updated seed alignments for new or existing families. Submit your new alignment and we'll take a look.

Secondary structure

This section shows a variety of different secondary structure representations for this family. More...

You can view the secondary structure of the family using the VARNA applet. You can see more information about VARNA iself here.

Species distribution

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Colour assignments

Archea Archea Eukaryota Eukaryota
Bacteria Bacteria Other sequences Other sequences
Viruses Viruses Unclassified Unclassified
Viroids Viroids Unclassified sequence Unclassified sequence


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This visualisation provides a simple graphical representation of the distribution of this family across species. You can find the original interactive tree in the adjacent tab. More...

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The tree shows the occurrence of this RNA across different species. More...


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This page displays the predicted phylogenetic tree for the alignment. More...

This tree was built using the fasttree method.

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This section shows the database cross-references that we have for this Rfam family.

Literature references

  1. Qin L, Xiong B, Luo C, Guo ZM, Hao P, Su J, Nan P, Feng Y, Shi YX, Yu XJ, Luo XM, Chen KX, Shen X, Shen JH, Zou JP, Zhao GP, Shi TL, He WZ, Zhong Y, Jiang HL, Li YX Acta Pharmacol Sin 2003;24:489-496. Identification of probable genomic packaging signal sequence from SARS-CoV genome by bioinformatics analysis. PUBMED:12791173

  2. Chen SC, van den Born E, van den Worm SH, Pleij CW, Snijder EJ, Olsthoorn RC J Virol. 2007;81:6771-6774. New structure model for the packaging signal in the genome of group IIa coronaviruses. PUBMED:17428856

  3. Narayanan K, Makino S J Virol 2001;75:9059-9067. Cooperation of an RNA packaging signal and a viral envelope protein in coronavirus RNA packaging. PUBMED:11533169

  4. Masters PS Virology. 2019;537:198-207. Coronavirus genomic RNA packaging. PUBMED:31505321

External database links

Curation and family details

This section shows the detailed information about the Rfam family. We're happy to receive updated or improved alignments for new or existing families. Submit your new alignment and we'll take a look.


Seed source PMID:17428856
Structure source Published; PMID:17428856
Type Cis-reg;
Author Moxon SJORCID logo, Petrov AIORCID logo
Alignment details
Alignment Number of
full 15
seed 6

Model information

Build commands
cmbuild -F CM SEED
cmcalibrate --mpi CM
Search command
cmsearch --cpu 4 --verbose --nohmmonly -T 30.00 -Z 765380.351698 CM SEQDB
Gathering cutoff 80.0
Trusted cutoff 101.7
Noise cutoff 38.2
Covariance model Download