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Expressed sequence tags from the midgut and an epithelial cell line of Chironomus tentans: annotation, bioinformatic classification of unknown transcripts and analysis of expression levels
KTH, School of Computer Science and Communication (CSC), Numerical Analysis and Computer Science, NADA.
KTH, School of Biotechnology (BIO), Gene Technology.
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2005 (English)In: Insect molecular biology (Print), ISSN 0962-1075, E-ISSN 1365-2583, Vol. 14, no 6, 689-695 p.Article in journal (Refereed) Published
Abstract [en]

Expressed sequence tags (ESTs) were generated from two Chironomus tentans cDNA libraries, constructed from an embryo epithelial cell line and from larva midgut tissue. 8584 5'-end ESTs were generated and assembled into 3110 tentative unique transcripts, providing the largest contribution of C. tentans sequences to public databases to date. Annotation using BLAST gave 1975 (63.5%) transcripts with a significant match in the major gene/protein databases, 1170 with a best match to Anopheles gambiae and 480 to Drosophila melanogaster. 1091 transcripts (35.1%) had no match to any database. Studies of open reading frames suggest that at least 323 of these contain a coding sequence, indicating that a large proportion of the genes in C. tentans belong to previously unknown gene families.

Place, publisher, year, edition, pages
2005. Vol. 14, no 6, 689-695 p.
Keyword [en]
Chironomus tentans, midgut, epithelial cell, expressed sequence tag, open reading frame, pre-messenger-rna, genome sequence, diptera, gene, accompanies, phylogeny, allergen
URN: urn:nbn:se:kth:diva-15189DOI: 10.1111/j.1365-2583.2005.00600.xISI: 000233408700012ScopusID: 2-s2.0-33645261119OAI: diva2:333230
QC 20100525Available from: 2010-08-05 Created: 2010-08-05Bibliographically approved

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Arvestad, LarsLundeberg, JoakimSavolainen, Peter
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Numerical Analysis and Computer Science, NADAGene Technology
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