Table 1.
Location and Sequence Divergence Patterns of 10 Candidate mlncRNAs from Drosophila pseudoobscura.
| Clone ID | Chromosome Scaffold (Strand) | Length (bp) | ORF Length (codons) | Intron | Distance to Closest Gene 5′ End Scaffold (strand)a | Distance to Closest Gene 3′ End Scaffold (strand)a | Percent Sequence Similarity to D. persimilis | Ka/Ksb |
| 991 | 2 (−) | 260 | 38 | N | 6,622 bp 5′ end GA15970 (−) | 1,607 bp 5′ end GA11876 (+) | 98.5 | NC |
| 2731 | 2 (+) | 206 | 47 | N | 891 bp 3′ end GA27083 (+) | 19,940 bp 5′ end GA27083 (+) | 97.3 | NC |
| 1383 | 2 (−) | 260 | 36 | N | 4,558 bp 5′ end GA22066 (−) | 3,009 bp 3′ end GA22058 (−) | 99.4 | NC |
| 354 | 3 (−) | 270 | 28 | N | 398 bp 3′ end GA19331 (+) | 2,202 bp 5′ end GA24816 (+) | 99.3 | NC |
| 233 | 3 (−) | 330 | 22 | N | 19,098 bp 5′ end GA12588 (−) | 19,714 bp 5′ end GA24784 (+) | 97.2 | NC |
| 97 | 4_group1 (−) | 358 | 35 | Y | 22,774 bp 3′ end GA25317 (+) | 8,793 bp 5′ end GA16361 (+) | 98.1 | 1.20 |
| 3982 | 4_group3 (−) | 290 | 36 | Y | 6,537 bp 5′ end GA19649 (−) | 732 bp 5′ end GA10584 (+) | 98.7 | NC |
| 1108 | 4_group4 (−) | 149 | 9 | Y | 1,286 bp 3′ end GA21432 (+) | 3,833 bp 3′ end GA16495 (−) | 98.2 | Indel |
| 2090 | XL_group1e (+) | 316 | 36 | N | 23,962 bp 5′ end GA15495 (−) | 430 bp 3′ end GA25756 (−) | 96.0 | 3.52 |
| 2338 | XR_group8 (+) | 236 | 31 | N | 20 bp 3′ end GA28512 (+) | 23,39 bp 5′ end GA12013 (+) | 98.3 | Stop |
a
Distances are approximate, based on the range of the Blat hit to the genome.
b
Estimated between the aligned ORF sequences from the D. pseudoobscura and D. persimilis genomes. NC, no change. Stop and indel denotes the presence of stop codons or indels in either of the two genome sequences.