Table 1.
cDNA Library and EST Characterization
| Riken embryo | Riken head | Adult testis | |
| Libraries | |||
| cDNA cloning vector | pFLC1 | pFLC1 | pOTB7 |
| PolyA presence | 100% (n = 485) | 92% (n = 352) | 99% (n = 445) |
| Inverted inserts | 0% (n = 454) | 0% (n = 355) | 0.7% (n = 706) |
| Average insert length | 2.1 kb (n = 96) | 1.6 kb (n = 96) | 2.0 kb (n = 96) |
| Chimeric insert | <1% (n = 488) | 1.6% (n = 668) | 2.8% (n = 313) |
| Initial gene discovery rate | 10% | 9% | 23% |
| ESTs | |||
| Attempts | 71807 | 67870 | 29664 |
| Failed quality | 10181 | 11731 | 6146 |
| Contaminant | 1372 | 1224 | 303 |
| Total high quality | 60254 | 54915 | 23215 |
| Average high quality read length | 484 | 472 | 528 |
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↵Determined by the presence of a polyA tract in the 5′-end sequence.
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↵Determined by PCR amplification using primers in the cloning vector.
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↵Clones whose 5′ and 3′ reads aligned to different chromosomal arms or >300 kb apart using Sim4.
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↵Originally determined by pairwise Blast using all previous ESTs.
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↵Reads of <150 bp after vector and quality trimming.
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↵Reads that were discarded because of significant hits to the Genbank GB.vector dataset.
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↵See Methods for details.
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EST, expressed sequence tag.
