Characterization of five novel human genes in the 11q13-q22 region.
The redundancy of sequences in dbEST has approached a level where contiguous cDNA sequences of genes can be assembled, without the need to physically handle the clones from which the ESTs are derived. This is termed EST based in silico gene cloning. With the availability of sequence chromatogram files for a subset of ESTs, the quality of EST sequences can be ascertained accurately and used in contig assembly. In this report, we performed a study using this approach and isolated five novel human genes, C11orf1-C11orf5, in the 11q13-q22 region. The full open reading frames of these genes were determined by comparison with their orthologs, of which four mouse orthologs were isolated (c11orf1, c11orf2, c11orf3 and c11orf5). These genes were then analyzed using several proteomics tools. Both C11orf1 and C11orf2 are nuclear proteins with no other distinguishing features. C11orf3 is a cytoplasmic protein containing an ATP/GTP binding site, a signal peptide located in the N-terminus and a similarity to the C. elegans protein "Probable ARP 2/3 complex 20kD subunit." C11orf4 is a peptide which displays four putative transmembrane domains and is predicted to have a cytoplasmic localization. It contains signal peptides at the N- and C-termini. C11orf5 is a putative nuclear protein displaying a central coiled coil domain. Here, we propose that this purely EST-based cloning approach can be used by modestly sized laboratories to rapidly and accurately characterize and map a significant number of human genes without the need of further sequencing.
O'Brien
K P
KP
Department of Medicine, Karolinska Hospital, Stockholm, S-171 76, Sweden.
Tapia-Páez
I
I
Ståhle-Bäckdahl
M
M
Kedra
D
D
Dumanski
J P
JP
D000818:Animals; D002880:Chromosomes, Human, Pair 11 / Q000235:genetics*; D003001:Cloning, Molecular / Q000379:methods; D018387:Codon, Initiator / Q000235:genetics; D018388:Codon, Terminator / Q000235:genetics; D019295:Computational Biology; D017124:Conserved Sequence / Q000235:genetics; D020451:Contig Mapping / Q000379:methods*; D016208:Databases, Factual; D020224:Expressed Sequence Tags; D005796:Genes / Q000235:genetics*; D008040:Genetic Linkage / Q000235:genetics*; D006801:Humans; D051379:Mice; D008969:Molecular Sequence Data; D016366:Open Reading Frames / Q000235:genetics; D017385:Sequence Homology; D016324:Sequence Tagged Sites
D018387:Codon, Initiator; D018388:Codon, Terminator