|
Fully sequenced cycad clones from contigs that match only genes in gymnosperms |
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| Contig |
GenBank accession number |
Transcript length (bp) |
Peptide (residues) |
InterPro result |
|
|
||||
| gy79c04_704 |
CB090702 |
586 |
72 |
No matches found |
| gy78g12_244 |
CB090673 |
627 |
84 |
No matches found |
| te82h02_741 |
CB093328 |
647 |
107 |
No matches found |
| he95e08_721 |
CB091708 |
651 |
114 |
No matches found |
| hf04g07_288 |
CB092366 |
684 |
141 |
ASP_RICH (unintegrated) |
| hk42a07_743 |
CB093061 |
790 |
142 |
No matches found |
| gp23c01_369 |
CB089407 |
791 |
189 |
No matches found |
| gp26f08_297 |
CB089628 |
827 |
69 |
No matches found |
| gy82g05_181 |
CB090964 |
840 |
118 |
No matches found |
| he92f06_688 |
CB091462 |
935 |
170 |
No matches found |
| gy81e11_544 |
CB090877 |
948 |
211 |
ASP_RICH (unintegrated) |
| he97c12_740 |
CB091858 |
965 |
140 |
No matches found |
| gp32b03_724 |
CB089926 |
1311 |
335 |
Peptidoglycan-binding LysM |
| te83a03_729 |
CB093338 |
1899 |
527 |
No matches found |
| Average |
893 |
173 |
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All available ESTs and annotated genes from GenBank were divided into three categories (angiosperms, gymnosperms and lower plants) and compared with the C. rumphii UniGene set. Forty-six cycad ESTs that had no similarity to angiosperm genes, but matched gymnosperm and lower plant genes, were fully sequenced, of which 14 clones (listed) still have no similarity to angiosperms. To confirm that these genes were of cycad origin, all 14 were successfully amplified from the DNA of a C. rumphii specimen other than the one used to construct the cDNA library. The transcript length, as well as the predicted translation product size, is shown. Interpro analysis identified conserved motifs in three of these cycad ESTs as shown. | ||||
Brenner et al. Genome Biology 2003 4:R78 doi:10.1186/gb-2003-4-12-r78 |
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