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| Bioinformatics and Microsatellite Sequences Analysis of EST Sequence in Ridge Tail Shrimp Exopalaemon carinicauda |
| DUAN Yafei,ZHANG Zhe,LI Jitao,LI Jian,LIU Ping |
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Abstract The analysis of bioinformatics and microsatellite sequences characteristics of expressed sequence tag (EST) sequence were studied ,basing on the hemocyte cDNA library of ridge tail shrimp Exopalaemon carinicauda constructed by our laboratory .The 1053 unique sequences were yielded from 2853 high quality ESTs ,including 329 contigs and 724 singletons .BLAST analysis revealed 593 (56 .3% ) of the unique se‐quences as orthologs of genes from other organisms ,22 (2 .1% ) of which were hypothetical protein ,and the remaining 438 (41 .6% ) had no homology to any sequences .Kyoto Encyclopedia of Genes and Ge‐nomes (KEGG) analysis indicated that 181 of the unique sequences mapped to 120 of metabolic pathways . A total of 416 (14 .58% ) of the microsatellite repeat sequences were found using EST‐SSR analysis .In the 416 repeat sequences ,most was dinucleotide with repeats of 374 (89 .90% ) ,followed by trinucleotide with repeats of 35 (8 .41% ) ,and the third tetranucleotide with repeats of 7 (1 .68% ) .The most common repeat types were AG ,AAT and AAGT repeat .The findings provide important information for screening the functional gene resource and molecular markers in ridge tail shrimp .
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Received: 25 May 2016
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