From IMGT-ONTOLOGY to IMGT/LIGMotif: the IMGT® standardized approach for immunoglobulin and T cell receptor gene identification and description in large genomic sequences

Table 5 Combinations of labelled HSPs used for the delimitation of conserved motif searching areas (CMSA).

Prototype	L-V-GENE-UNIT	D-GENE-UNIT	J-GENE-UNIT
Combination of labelled HSPs	L-PART1 + V-EXON + V-RS L-PART1 + V-EXON V-EXON⁽²⁾ + V-RS V-EXON⁽²⁾ L-V-GENE-UNIT	5'D-RS + 3'D-RS ⁽¹⁾ 5'D-RS + D-REGION D-REGION + 3'D-RS 5'D-RS 3'D-RS D-REGION D-GENE-UNIT	J-RS + J-REGION J-REGION J-RS J-GENE-UNIT

The underlined combinations are those used in priority. If not present, the combinations below in the columns are chosen in the order from top to bottom.
(1) D-REGION is not used even if it is identified because 5'D-RS and 3'D-RS are sufficient for its precise delimitation, as well as those of the heptamers and nonamers.
(2) As L-PART1 is missing, its motifs (INIT-CODON and DONOR-SPLICE) are not delimited.

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