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The use of multiple alphabets in kappa‐gene immunoglobulin DNA sequence comparisons.
Author(s) -
Karlin S.,
Ghandour G.
Publication year - 1985
Publication title -
the embo journal
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 7.484
H-Index - 392
eISSN - 1460-2075
pISSN - 0261-4189
DOI - 10.1002/j.1460-2075.1985.tb03763.x
Subject(s) - biology , kappa , genetics , dna , gene , dna sequencing , immunoglobulin gene , sequence (biology) , antibody , computational biology , microbiology and biotechnology , philosophy , linguistics
Comparisons within and between the human, mouse and rabbit immunoglobulin‐kappa gene (J‐C region) DNA sequences are carried out in terms of three two‐letter nucleotide alphabets: (i) S‐W alphabet (W = A or T; S = G or C); (ii) P‐Q alphabet which distinguishes purines (P = A or G) from pyrimidines (Q = C or T); and (iii) a ‘control’ E‐F alphabet (E = A or C; F = G or T). All statistically significant direct repeats within each of the three sequences and all significant block identities (a set of consecutive matching letters) shared by two or more sequences are determined for each alphabet. By contrast to the S‐W and E‐F alphabets, the P‐Q alphabet comparisons reveal an abundance of statistically significant block identities not seen at the nucleotide level. Various interpretations of these P‐Q structures with respect to control and functional roles are considered.