hsa-miR-133 and mmu-miR-133: reason for similar name - (Jun/13/2008 )

Hello,

Is there a reason for the similar names of hsa-miR-133 and mmu-miR-133 ?

In general: are hsa-name and mmu-name similar microRNAs ? (or cel- , bta- , ...)

Probably there are official guidelines for naming microRNAs that I am unaware of ...

Thanks for any help / advice.

Illes

-Illes J Farkas-

same number indicates they are highly homologous across different species. Here are all miRs in the 133 family http://microrna.sanger.ac.uk/cgi-bin/seque...fam=MIPF0000029

-pcrman-

Thanks!

Do you happen to know the correct term describing the letter "a" at the end of hsa-miR-133a ? Is it called a "variant", i.e., are hsa-miR-133a and hsa-miR-133b called "variants" of the same microRNA, hsa-miR-133 ? Or are the miR-133a,b,c,... what people (e.g., TargetScan) usually call a "family" of microRNAs ?

QUOTE (pcrman @ Jun 14 2008, 02:33 AM)

same number indicates they are highly homologous across different species. Here are all miRs in the 133 family http://microrna.sanger.ac.uk/cgi-bin/seque...fam=MIPF0000029

-Illes J Farkas-

Yes, letter suffixes such as -a, -b are variants which differ in a few nts. number suffixes such as -1, -2 are duplicates with identical sequences.

QUOTE

MicroRNAs are named using the "mir" prefix and a unique identifying number (e.g., miR-1, miR-2, . . . miR-89, etc.). The genes that encode the miRNA are also named using the same three-letter prefix, with capitalization, hyphenation, and italics according to the conventions of the organism (for example, mir-1 in C. elegans and Drosophila, MIR156 in Arabidopsis and rice). The identifying numbers are assigned sequentially, with identical miRNAs having the same number, regardless of organism. Nearly identical orthologs can also be given the same number, at the discretion of the researcher. For example, miR-1 of Drosophila differs by a single nucleotide from miR-1 of C. elegans and humans. Identical or very similar miRNA sequences within a species can also be given the same number, with their genes distinguished by letter and/or numeral suffixes, according to the convention of the organism (e.g., the ~22-nt transcripts of Drosophila mir-13a and mir-13b are slightly different in sequence, whereas those of mir-6-1 and mir-6-2 are identical; Lagos-Quintana et al. 2001Go).

-pcrman-

That was good information to know.
Also, any idea what the extensions '-3p' and '-5p' stand for?

Thanks.

-Gallus gallus-

QUOTE (Gallus gallus @ Jul 30 2008, 11:54 AM)

That was good information to know.
Also, any idea what the extensions '-3p' and '-5p' stand for?

Thanks.

When 2 mature single stranded miRNAs result from 1 double stranded precursor, the -3p and -5p are used to denote whether the miRNA in question is from the 5' or 3' end of the transcript. Kind of like using the * symbol for the less common passenger strand, only -3p and -5p are used when the distribution between the 2 strands is more even and it wouldn't be so useful to label one of them as a passenger. Hope this kind of makes sense...

-miRNA man-

QUOTE (miRNA man @ Jul 30 2008, 01:13 PM)

QUOTE (Gallus gallus @ Jul 30 2008, 11:54 AM)

That was good information to know.
Also, any idea what the extensions '-3p' and '-5p' stand for?

Thanks.

Yes it does... thanks!!

-Gallus gallus-