Assembly and analysis of the mouse immunoglobulin kappa gene sequence

摘要: The mechanisms regulating V gene usage leading to the immunoglobulin (Ig) repertoire have been of interest for many years but are only partially defined. To gain insight into these processes, we assembled nucleotide sequence Mus musculus Igκ locus using data recently made available from genome-wide sequencing efforts. We found be 3.21 Mb in length and mapped all known functional, pseudo- relic segments onto sequence, along with regulatory elements. corrected errors former assignments, positions orientations identified a novel V κ4 segment. This assembly allowed establishment unified nomenclature genes based on their relative similar system adopted human Ig loci. 5′ boundary is defined by presence tumor-associated calcium-signal transducer-2 located 19 kb upstream κ24-140 , most distal gene. No non-V κ were locus. Detailed analysis sequences 0.5 kb upstream, within, downstream each potentially functional revealed interesting patterns statistically significant clustering transcription factor consensus binding sites, generally specific particular family. E boxes clustered not promoter regions, also nearby recombination signal sequences. Family members κ4/5 exhibit conserved pattern octamer sites as well Ebf introns, Lef-1 regions. discuss potential implications findings context possible combinatorial targeting rearrangement. its analyses resource scientific community.