Figure 4 of
Otteson, Mol Vis 2005;
11:986-995.Figure 4 of
Otteson, Mol Vis 2005;
11:986-995.
Figure 4. Alignment of DNA sequences of zebrafish crx showing regions of sequence variability
Alignment of crx sequence data from mok and nie wild-type sibs with published zebrafish genomic and cDNA sequences reveals areas of sequence variability associated with repetitive sequence elements in both non-coding and intronic regions. A: The GA repeat in the 5' untranslated region of exon 1; B: the CATC tretranucleotide repeat region in intron 2; and C: the GA repetitive element and flanking G/A rich sequence in the 3' untranslated region in exon 3. Asterisks (*) under sequence indicate variable bases; dashes indicate gaps introduced to optimize alignment. Sequence data from mok and nie were obtained from the present study; additional zebrafish sequences were obtained from the publicly available databases as follows: AF0503443 from crx cDNA sequence NCBI database [4]; zc12909 genomic sequence from Sanger database; and ctg13244 genomic sequence from Ensembl Database.
A:
mok CCAGACCCGTAACACAGCGTCGCAGAGAAAAAAGAGAGTGAGAGAGGGGTGAGAGAGGGAGGGAGAGAGAGAGATAGAGA
nie CCCGACCCGTAAAACAGCGTCGCAGAGAAAAAAGAGAGTGAGAGAGGGGTGAGAGAGGGAGGGAGAGAGAGAGATAGAGA
AF503443 CCCGACCCGTAAAACAGCGTCGCAGAGAAAAAAGAGAGTGAGAG-GGGGTGAGAGAGGGAGGGAGAGAGA--------GA
zc12909 CCCGACCCGTAAAACAGCGTCGCAGAGAAAAAAGAGAGTGAGAGAGGGGTGAGAGAGGGAGGGAGAGAGAGAGATAGAGA
ctg13244 CCCGACCCGTAAAACAGCGTCGCAGAGAAAAAAGAGAGTGAGAGAGGGGTGAGAGAGGGAGGGAGAGAGA--------GA
* * * ********
|
B:
mok CTATCTATCCATCTATCCATCCATCCATCCACATCC-TCC-T-CATC----------------CATCCATTCAT
zc12909 CTATCTATCCATCTATCCATCCATCCATCCA--TCCATCCATCCATCCATCCATCCATCCATTCATCCATTCAT
ctg13244 CTATCTATCTATCTATCCATCCATCCATCCA--TCCATCCATCCATCCATCCATCCATC----CATCCATTCAT
* ** * * * * ****************
|
C:
mok AAGTGAGAGAGAGAGAGAGTGAAGCGCGAGAGGGAAAGACATATGCGTGAAGAAGAAATGATGCAGAACTATTGCCGGAG
nie AAGTGAGAGAGAGAGAGAGTGACGCGCGAGGGGGA--GAGAGATATGTGT-GAA-AAATGATGCAGAACTATTGCCGGAG
AF503443 AAGTGAGAGAGAGAGAG--TGAAGCGCAAGAGGGAAGGAAAGATGCGTGAAGAAGAAATGATGCAGAACTATTGCCGGAG
zc12909 AAGTGAGAGAGAGAGAGAGTGAAGCGCAAGAGGGAAGGAAAGATGCGTGAAGAAGAAATGATGCAGAACTATTGCCGGAG
ctg13244 AAGTGAGAGAGAGAGAGAGTGAAGCGCAAGAGGGAAGGAAAGATGCGTGAAGAAGAAATGATGCAGAACTATTGCCGGAG
** * **** ** *** * * *
|