Good afternoon from Barcelona,
I would like to ask a little question that I cannot find on the Internet. As fas as i know, there are these Rfam family types:
Cis-reg;
Cis-reg; frameshift_element;
Cis-reg; IRES;
Cis-reg; leader;
Cis-reg; riboswitch;
Cis-reg; thermoregulator;
Gene;
Gene; antisense;
Gene; antitoxin;
Gene; CRISPR;
Gene; lncRNA;
Gene; miRNA;
Gene; ribozyme;
Gene; rRNA;
Gene; snRNA;
Gene; snRNA; snoRNA; CD-box;
Gene; snRNA; snoRNA; HACA-box;
Gene; snRNA; snoRNA; scaRNA;
Gene; snRNA; splicing;
Gene; sRNA;
Gene; tRNA;
Intron;
Can somebody explain what is the meaning of one RNA sequence being classified as "Gene", and only "Gene"?
What about the Intron-type?
The Cis-reg RNAs could be classified as well as lncRNA, couldn't they?
1 answer
- I would guess that the terms following the semi-colon are sub-types of the type "Gene". So those entries classed only as "Gene" are not known to belong to any of the sub-types.
As Hamish said, Rfam help is the place for specific queries.
The Intron type includes RNAs such as Group I catalytic intron (ribozymes). See the Wikipedia entry.
Are all Cis-reg RNAs also lncRNAs? If not, then no.
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Probably worth contacting the Rfam folks for this, see http://rfam.sanger.ac.uk/help#tabview=tab12