Mchess: Created page with "===Strongylocentrotus purpuratus Genome Assembly v5.0=== The gene model for LOC756959 appears to be incorrectly annotated, with the upstream locus, LOC115918705, likel..."

2023-05-02T16:00:07Z

Created page with "===<i>Strongylocentrotus purpuratus</i> Genome Assembly v5.0=== The gene model for LOC756959 appears to be incorrectly annotated, with the upstream locus, LOC115918705, likel..."

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===<i>Strongylocentrotus purpuratus</i> Genome Assembly v5.0===

The gene model for LOC756959 appears to be incorrectly annotated, with the upstream locus, LOC115918705, likely being part of the gene. Lines of evidence that support this assertion include the absence of 5’-UTR within LOC756959 mRNA transcript, XM_030987442.1, and the adjacency of the coding loci on the same reading frame. Furthermore, proteins encoded by each gene models individually aligns to different regions of the protein encoded by ''clstn1'' in mammals when they are input into BLAST. However, the overall gene model for LOC756959 and LOC115918705 likely remains incomplete, for neither of these loci are associated mRNA transcripts with 5’-UTRs. The gene model also does not encode for proteins with signal peptides when analyzed using SMART ([https://academic.oup.com/nar/article/49/D1/D458/5940513?login=true Letunic et al., 2006]) or SignalP 6.0 ([https://www.nature.com/articles/s41587-021-01156-3 Teufel et al., 2022]).

[[File:LOC756959 SMART Sp.png|thumb|Incomplete Model (LOC756959) for ''Strongylocentrotus purpuratus'' in SMART]]
[[File:LOC115918705+LOC756959.png|thumb|Incomplete Model (LOC115918705 and LOC756959) for ''Strongylocentrotus purpuratus'' in SMART]]

[[File:LOC756959 Sp cstn1 Mm BLASTp.png|thumb|BLASTp Alignment Comparing Protein Encoded by LOC115918705 from ''Strongylocentrotus purpuratus'' (top) to CSTN1 in ''Mus musculus'' (bottom)]]
[[File:LOC756959SptoMmcstn1 Correct BLASTp.png|thumb|Blastp Alignment Comparing Protein Encoded by LOC756959 from ''Strongylocentrotus purpuratus'' (top) to CSTN1 in ''Mus musculus'' (bottom)]]

[[File:SignalP6.0 LOC756959 Sp.png|thumb|Incomplete Model (LOC756959) for ''Strongylocentrotus purpuratus'' in SignalP 6.0]]
[[File:No Signal peptide SignalP 6.0 LOC115918705+LOC756959.png|thumb|Incomplete Model (LOC115918705 and LOC756959) for ''Strongylocentrotus purpuratus'' in SignalP 6.0]]

ECB-FEAT-23083531 - Revision history

Mchess: Created page with "===Strongylocentrotus purpuratus Genome Assembly v5.0=== The gene model for LOC756959 appears to be incorrectly annotated, with the upstream locus, LOC115918705, likel..."