Exons and introns
The horizontal sequence is the Emericella
(Aspergillus) nidulans calmodulin gene,
translated into the three forward frames; and
the vertical sequence is the gene product.
We have chosen a very stringent matrix, since we
expect an exact match in the correct frames,
and a very small window, since exon-intron
boundaries are as sharp as can be.
We clearly see four exons, actually there is
one more but it is very small, and it can
be seen only if we lower the window size (but this
also heightens the background noise - try it
out for yourself).
We have positioned the cursor at the beginning
of an exon, and the alignment window shows
a perfect match starting from this position,
in the second reading frame.
- ANCALM (J05545):
TGAATCCCAGTTCAGCTCTTCAGCCTTTCGTGGATAAGAGAAGGCTGAAAGCGGGTCACGTTTTGGACTAAGCGACGCCC
TTGCCAGGCATCCAGCTTAGTGGCTGTTGGTTTATTTGTAGAGTCCCCTTAACTCTCTCTCCCCCACATCGCCCATCTCC
ACCGACGCCTCTCTCTCTCGTGTTATTTCTCCCCATTCTCGCTTCATTTCCCATCCATTTTCGAGTTCTGCAATATCCTC
ACTAACTAGTATAGCCATGGTACGCCTCACTCGATCATCATCGTTGTTCGTGCGCTCAAACGCATCCGCTGTGCGGGGCA
GATCTACTGGTGTCCTCCTGCGTAGATGAGCTGACGACTTCACTTCCAGGCCGACTCTCTGACCGAAGAGCAAGTTTCCG
AGTACAAGGAGGCCTTCTCCCTATTTGTAAGTGCCATTGGTTACTGTTATATCAAAATCGAATTTGTATTGAGAGTATAC
TAATACATTCCGCACTAAACAGGACAAGGATGGCGATGGTTAGTGCATCTGTCCCCCCAGGCTTGATCGCATTCGCCCAG
CATGTCTGCTGTAGCTCTATATAACCGTTTCTGACAAACGGCGACAGGCCAGATTACCACTAAGGAGCTTGGCACTGTCA
TGCGCTCGCTCGGTCAGAATCCTTCAGAGTCTGAGCTTCAGGACATGATCAACGAAGTTGACGCCGACAACAATGGCACC
ATTGACTTTCCAGGTACGCGAACTCCCCAATCTACTTCGCACCAGCCTAGAAATGTACTAATGCTAAACAGAGTTCCTTA
CCATGATGGCCAGAAAGATGAAGGACACCGATTCCGAGGAGGAAATTCGGGAGGCGTTCAAGGTCTTCGACCGTGACAAC
AATGGTTTCATCTCCGCTGCTGAGCTGCGTCACGTCATGACCTCGATCGGTGAGAAGCTCACCGATGACGAAGTCGACGA
GATGATCCGCGAGGCGGACCAGGATGGCGACGGCCGAATTGACTGTACGTTGGCTCCCCGCTTATCCTTGACCGTAGAAG
AGGTATGATACTGATCGGCTGCAGACAACGAATTCGTCCAACTTATGATGCAAAAATAAACGCTCTTACCTTTGATGTTT
ATCGTTAGCGAAGAAGGTGTGGACACTTTCCAGCTGTCTCATCTTAGTTGTCATATCATTGAATGTAGCCTATCTGATTG
CGGATAAGCAACTGATGGTTGTAACGGCTTCCATTTTGCTCTGACTTCTGAGTACCCTTTTCCTTCATGTTTGTTCGTCG
ACCATTCTGCTAGTGAGATATGCGTAGAGTTGGGTAGGCTGAATTTACGAGTCTCTGTTGGGGGATATCACATGCTTCAC
TACAATCTTTCTCTAC
- CALM_EMENI (P19533):
ADSLTEEQVSEYKEAFSLFDKDGDGQITTKELGTVMRSLGQNPSESELQDMINEVDADNNGTIDFPEFLTMMARKMKDTD
SEEEIREAFKVFDRDNNGFISAAELRHVMTSIGEKLTDDEVDEMIREADQDGDGRIDYNEFVQLMMQK
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