Sentence examples for carp sequences were from inspiring English sources
In this work, carp sequences were collected and built into contigs.
Carp sequences were BLAST searched against both human and zebrafish Refseq proteins and the best hit determined the route to ortholog identification (figure 1).
B) The carp sequences were partial proteins from 6 frame nucleotide translations and from a eukaryotic and not a prokaryotic species.
The corresponding common carp sequences were extracted using their aligned coordinates and translated with the getorf program from the EMBOSS package [ 44].
B) The Carp sequences are generated from single pass (one strand) cDNA sequencing from RNA and, as such, are likely to contain more errors.
The similarity searches against 4 model fish species reference genomes showed that 59.2% grass carp sequences used were considered to be significantly similar to zebrafish genome sequences.
Paralogs within the common carp and zebrafish sequences were identified by all-against-all BLASTN searches.
The translated carp amino acid sequences were aligned against the orthologous zebrafish protein using Clustalw [ 45].
Carp CXCL8_L2 (GenBank accession number AB470924) and zebrafish CXCL8_L1_chr1 (GenBank accession number XM_001342570) sequences were used as query in BLAST searches.
The UIcluster sequences were assembled using the Phrap program to build a unigene data set for the ESTs from the head kidney of grass carp.
Following a strategy similar to that used for the isolation of zebrafish grn1 cDNA, primers based on the purified carp granulin-A peptide sequence were designed to clone partial cDNAs for zebrafish grna and grnb, respectively (not shown).
