ptch2tc294z mutants possess a recessive mutation,
ptch2W1040X , that truncates the Ptch2 protein at amino acid 1039 in the C-terminus, just after the eighth transmembrane segment.
15,17 Given the similarity in coloboma phenotypes and
pax2a expression between
uta1 and
ptch2tc294z mutants, we next determined if
uta1 was a
ptch2 allele. Complementation crosses between
uta1 and
ptch2tc294z resulted in embryos with colobomas, supporting the possibility that they were alleles of the same gene (data not shown). Cloning and sequencing of the
ptch2 gene from cDNA derived from
uta1 mutants and wild-type siblings revealed a 57-bp internal deletion in the
ptch2 open-reading frame that resulted in an in-frame deletion of 19 amino acids from the Ptch2 protein (
Fig. 5A). Cloning and sequencing of this region of the
ptch2 gene from genomic DNA isolated from
uta1 mutants and wild-type siblings revealed a G → A mutation at the intron 4 splice-acceptor site (
Fig. 5B). Reanalysis of cDNA sequences from exon 5 of the
ptch2 gene identified a cryptic, in-frame splice-acceptor site whose use results in the removal of the first 57 bp of exon 5 (
Fig. 5A). The 19 amino acids absent from the Ptch2
uta1 protein are highly conserved between zebrafish, human, and mouse Ptch2 proteins, as well as with Ptch1 orthologs in each of these systems (
Fig. 5C). Based on the predicted structure/topology of the Ptch2 protein,
18 these 19 amino acids are predicted to contribute to the first extracellular loop of the protein (
Fig. 5D). Hereafter, we refer to
uta1 as
ptch2uta1 in accordance with zebrafish nomenclature guidelines.