TCRshows
Cell Therapy knowledge platform
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TCRshows
Cell Therapy knowledge platform
Pick the V and J gene calls, enter a CDR3, and the full-length variable region is assembled for you. Residues or bases that the germline segments share with the CDR3 are aligned and collapsed automatically, so nothing is duplicated and it does not matter whether your CDR3 carries the anchoring C and F. Output is available as amino acids or as DNA; you can also identify the V/J genes of a real sequence against the reference set, or back-translate an amino acid sequence to DNA.
TRAV call → alpha CDR3 → TRAJ call
TRBV call → beta CDR3 → TRBJ call
Paste a real TRV or TRJ sequence, amino acid or nucleotide (the type is detected for you), and it is compared against every reference to find the most likely gene and allele call. What separates one V gene from another sits mostly in CDR1 and CDR2, the framework regions being highly conserved, so aligning the whole V region is what surfaces that difference.
Paste a TCR amino acid sequence and it is back-translated to the most likely DNA. Under “TCR germline first”, positions that align to a V or J reference take the native reference codon, while the CDR3 and other non-templated positions take the most frequent human codon — as close to a natural TCR coding sequence as this can get.