TABLE 3.
Sequence conservation between human and mouse within 10 wobble splicing intron-exon sets
| Accession no.a | EST countb
|
Exon conservation (%)c | Intron conservation (%)d | Conservation in the 60-bp region preceding NAGNAG (%)e | |
|---|---|---|---|---|---|
| Human | Mouse | ||||
| NP_056371 (SIPA1L1)* | 33/14 | 2/27 | 92 | 22 | 80 |
| NP_055948 (MAPK8IP3)* | 1/4 | 4/3 | 90 | 1 | 56 |
| NP_055041 (RAGE)* | 7/9 | 9/0 | 88 | 5 | 28 |
| NP_060920 (ARID1A)* | 14/14 | 0/18 | 93 | 46 | 49 |
| NP_037395 (BRD7)* | 8/19 | 1/36 | 82 | 27 | 70 |
| Avg | 89 | 20.2 | 56.6 | ||
| NP_003196 (TCF12) | 12/4 | 31/2 | 91 | 13 | 61 |
| NP_003063 (SMARCA4) | 77/27 | 39/10 | 92 | 1 | 100 |
| NP_003893 (FUBP1) | 48/47 | 50/48 | 92 | 40 | 70 |
| NP_003361 (VASP) | 27/3 | 20/2 | 86 | 44 | 71 |
| NP_055491 (PUM1) | 46/3 | 48/1 | 95 | 5 | 98 |
| Avg | 91.2 | 20.6 | 80 | ||
a
*, statistical differences were found between species-specific splicing patterns of human and mouse.
b
The number of insertion and deletion isoforms were counted by NCBI human and mouse EST database screening.
c
Conservation of exon sequences flanking the wobble splicing junction is indicated. Human/mouse alignments were analyzed, and conservation scores were calculated by ClustalW software.
d
Conservation of intron sequences upstream of the NAGNAG tandem motif is indicated.
e
Sequence conservation was observed for the 60-bp region upstream of the splice sites, including the sequence of the 3′ tandem splice site.