Modification to a mus312 allele mus312[Z3997]. - Sekelsky, J. (2005)
Subject: Modification to a mus312 allele mus312[Z3997] Hi, I was recently curating the mus312 gene with Javasean, and encountered a problem with the allele mus312[Z3997]. It was reported as being Q718 to stop, but is actually Q689 to stop using mus312-PA as the reference. I have a personal communication from Jeff Sekelsky explaining the discrepancy. Here is the email from Jim: Hi Susan. I haven't looked at the annotation for this gene in awhile. I see now that there are two alternatively spliced forms listed, which differ by the inclusion of a small exon. Based on the EST sequences I've looked at, there are two different spliced forms that BOTH have the small exon. The next exon starts at one of two sites, which differ from one another by 12 bp, explaining the 4 aa difference: >gi|33589608|gb|BT010102|BT010102 Drosophila melanogaster GH15104 full insert cDNA. Query: 101 gacaaacccataGATGACTTTATagacctaacacaagagttcgatatggtagaatttaat 160 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 1927 gacaaacccatagatgactttatagacctaacacaagagttcgatatggtagaatttaat 1986 >gi|25009784|gb|BT001310|BT001310 Drosophila melanogaster AT14041 full insert cDNA. Query: 113 GATGACTTTATagacctaacacaagagttcgatatggtagaatttaatgaatcaaagcct 172 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 550 gatgactttatagacctaacacaagagttcgatatggtagaatttaatgaatcaaagcct 609 We used the predicted translation product from the longest known cDNA sequence, which has the small exon 5 and the exon 6 that is 12 bp longer. The mutation in Z3997 is definitely in a Q residue. It changes 'acccagaac' (TQN) to 'accTagaac' (T*N). I see now that it should be Q693. The sequence file that we have has 25 residues per line, which probably explains why we were off by that number. Thanks for catching this. Jeff Subject: Re: Modification to a mus312 allele mus312[Z3997] Hi Rachel, The allele is reported as Q693 for the CDS that will hopefully exist soon (mus312-PC) but is not yet in our database. It would be Q689 for mus312-PA and Q674@ for mus312-PB. Susan.