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| GA-cis | |
|---|---|
 Consensus secondary structure and sequence conservation of GA-cis RNA | |
| Identifiers | |
| Symbol | GA-cis |
| Rfam | RF02987 |
| Other data | |
| RNA type | Gene; sRNA |
| SO | SO:0001263 |
| PDB structures | PDBe |
The GA-cis RNA motif is a conserved RNA structure that was discovered by bioinformatics.[1] GA-cis motif RNAs are found in one species classified within the phylum Bacillota: specifically, there are 9 predicted copies in Coprocuccus eutactus ATCC 27759.
GA-cis RNAs are generally located in the 5' untranslated regions of protein-coding genes. Indeed, the RNAs are upstream of multiple genes that encode non-homologous proteins. If all examples of the RNA were upstream of homologous genes, there is the possibility that the RNAs were conserved in that position simply by inheritance. The non-homology of the genes downstream of COG2908 RNAs makes this scenario less likely. This evidence suggests that GA-cis RNAs function as cis-regulatory elements. However, due to some cases where a GA-cis RNA is not immediately upstream of a gene makes this hypothesis tentative.
The GA-cis RNA motif is named because of the frequent occurrence of conserved GpA di-nucleotides in its sequence, and its locations that are typical of cis-regulatory elements.
- ^ Weinberg Z, Lünse CE, Corbino KA, Ames TD, Nelson JW, Roth A, Perkins KR, Sherlock ME, Breaker RR (October 2017). "Detection of 224 candidate structured RNAs by comparative analysis of specific subsets of intergenic regions". Nucleic Acids Res. 45 (18): 10811–10823. doi:10.1093/nar/gkx699. PMC 5737381. PMID 28977401.