VDJ rearrangement at the teleost TCRβ locus leads to a highly diverse repertoire of junctions for each VβJβ combination. From a rainbow trout 5′ RACE library of TCRβ transcripts, 47 clones encompassing a full Vβ-Dβ-Jβ-Cβ sequence were selected and analyzed. A similarity analysis of the sequences evidenced 10 Vβ families, of which 6 were not previously described. Immunoscope and sequence analysis of the Vβ-Dβ-Jβ junctions of the new families confirmed that they create a polyclonal and diverse repertoire. Multiple alignments showed that rainbow trout Vβs possess most of the conserved residues typical of Vβ segments. However, this study revealed a high complementarity-determining region 2 (CDR2) and CDR1 length diversity among rainbow trout Vβ families, suggesting that the spatial orientation of the TCR could fluctuate in the TCR/peptide/MHC complex, depending on the Vβ expressed. Among the new Vβ families, Vβ6 displayed the strongest deviance from typical hypervariable CDR1 and CDR2 loops, with an unusually short CDR2. Moreover, the Vβ6 sequence is overall divergent from typical Vβ sequence, raising the question of its functional relevance. Immunoscope experiments identified a Vβ6-Jβ3 junction, which was amplified during the response against viral hemorrhagic septicemia virus, a fish rhabdovirus. Vβ6 seems therefore to be expressed functionally in a selected TCR. However, the shorter Vβ6 transcripts produced through an alternative splicing lack the C′, C″, D, and E strands of the Vβ domain and are probably nonfunctional.