Subject: CoVa gene Dear Sir, I am working on the isolation of mutations in the Drosophila gene encoding for cytochrome c oxidase subunit Va (CoVa). In the CoVa FlyBase Report you annotate three insertion line mutations (EP3183, l(3)S01104 and l(3)S011046) as alleles of the CoVa gene. Since blast analysis of the sequences flanking the insertion sites not recognizes the sequence of the CoVa gene and l(3)S011046 is an insertion in the adjacent gene CG6946, I would greatly appreciate receiving informations on the source of the annotations on the CoVa alleles. Thank you in advance. Yours sincerely, Corrado Caggese \-- Corrado Caggese Istituto di Genetica Universita di Bari via Amendola 165/A 70126 Bari, Italia Subject: Re: CoVa gene Dear Corrado, Thank you for your mail. . I have run a BLAST search using the sequence provided by Peter as being flanking for l(3)S011046 and it identifies a hit for sequence record accession number Y09065. We have Y09065 under the record for CoVa. Y09065 describes mRNA and coding region sequence for CoVa, determined independently from l(3)S011046, by you - I note. I enclose the result at the bottom. You wrote: >l(3)S011046 is an >insertion in the adjacent gene CG6946, this is a bit of a puzzle to me - we did not previously know this and it seems to contradict the previous assignment of S011046 to the CoVa transcription unit. CG6946 and CoVa are divergently transcribed though the annotation does not yet suggest that they overlap (there are 317 bp between the 5' ends). What is the basis for your assigning l(3)S011046 to CG6946? Is the identification of CoVa as a BLAST hit with the flanking sequence for l(3)S011046 invalid? Thank you for writing to us about this - I will correct the errors about l(3)S011041 and EP(3)3183 now (though unfortunately the updates will take some weeks to reach the public view) and look forward to hearing from you about S011046/CG6946. With best wishes, Rachel. . \---------------------------------------------------------------------- Rachel Drysdale, Ph.D. FlyBase (Cambridge), \---------------------------------------------------------------------- Subject: CoVa Dear Rachel, I think that l(3)S011046 is not an allele of CoVa but it is in reality an allele of the CG6946 divergently transcribed gene since the insertion site of this mutation is at 24th nucleotide of a 5' trascribed sequence (LD29934) of the CG6946 gene. Best regards, Corrado \-- Corrado Caggese Istituto di Genetica Universita di Bari via Amendola 165/A 70126 Bari, Italia
