Citing IMGT databases: Manso T. et al. IMGT® databases, related tools and web resources through three main axes of research and development. Nucleic Acids Res. 2022 Jan 7;50(D1):D1262-D1272. doi: 10.1093/nar/gkab1136 PMID: 34875068 Free PMC article.
Program version: v. 

Add the possibility to obtain a gene table per strain (for mouse now and for other species later) and allotypes/isotypes for human.
September 25th, 2024.

Bibliographical references in alphabetic order, small design changes and addition of "NL" for non-localized gene.
June 14th, 2024.

Addition of 'Score for IMGT allele confirmation' as well as NCBI TPA accession numbers.
September 20th, 2023.

Implementation of the dynamic gene table.

Gene table legend:

"+" or "-" indicates if the gene sequences have been found (+) or not been found (-) rearranged (R), transcribed (T) and/or translated into protein (Pr). Arbitrarily that information is shown on the first line of each gene, when the data have been confirmed by several studies.

Functionality is shown in parentheses, (F) and (P), when the accession number refers to rearranged genomic DNA or cDNA and the corresponding germline gene has not yet been isolated.

IMGT allele confirmation: A scoring system is employed to indicate the number of IMGT/LIGM-DB reference sequences and other sequences from the literature in which an IG or TR gene allele has been identified and annotated.

A single star ()
indicates that an IG or TR gene allele is annotated in the reference sequence only.
Two stars ()
indicate that an IG or TR gene allele is annotated in its reference sequence and in one sequence from the literature.
Three stars ()
indicate that an IG or TR gene allele is annotated in its reference sequence and in at least two sequences from the literature.
In the Excel file, the stars are represented by the plus symbol (+).
Click on:
  • IMGT gene name to get the corresponding IMGT/GENE-DB entry (link).
  • IMGT allele name to see the corresponding Alignments of alleles (link).
  • Accession number to get the corresponding IMGT/LIGM-DB entry (link).
  • MAP: mapped sequences. Click to access GENE-DB «LOCALIZATION IN GENOME ASSEMBLIES» (link).
  • [number] to access the corresponding IMGT reference (popover).
  • (number) to see the corresponding IMGT note (popover).
Options:
  • You can show/hide columns (), download data () or put the table in fullscreen () using buttons.
See also (IMGT Scientific chart):
Select a species and a IMGT group to get the gene table:
Only IMGT available species/group are shown in the drop-down list.
The gene table can take several seconds to appear, please be patient.
Gene table of pig (Sus scrofa) IGKJ IMGT group:
IMGT gene nameIMGT allele nameScore for
IMGT allele
confirmation		FctChromosomosal
localization		R T PrIMGT/LIGM-DB reference sequencesIMGT/LIGM-DB sequences from the literature
Clone namesBreedAccession
numbers		Positions
in the sequence
(J-GENE-UNIT)
or J-REGION (*)		Secondary
accession
numbers		Clone namesBreedAccession
numbers		Positions
in the sequence
(J-GENE-UNIT)
or J-REGION (*)
IGKJ1 IGKJ1*01 F 3q12-q14
RTPr
++
 GU942438 [1] 284-360 CH242-221I5 CU694848 complement(32554-32630)
CH242-227G10 FP312898 [2] 127886-127962
IGKJ2 IGKJ2*01 F 3q12-q14
RTPr
++
 GU942438 [1] 642-719
IGKJ2 IGKJ2*02 F 3q12-q14
RTPr
++
 CH242-227G10 FP312898 [2] 128243-128320 CH242-221I5 CU694848 complement(32195-32272)
IGKJ3 IGKJ3*01 F 3q12-q14 CH242-227G10 FP312898 [2] 128549-128625 CH242-221I5 CU694848 complement(31890-31966)
IGKJ3 IGKJ3*02 ORF (1) 3q12-q14 GU942438 [1] 948-1024
IGKJ4 IGKJ4*01 F 3q12-q14
RTPr
++
 GU942438 [1] 1286-1364 CH242-221I5 CU694848 complement(31550-31626)
IGKJ4 IGKJ4*02 F 3q12-q14 CH242-227G10 FP312898 [2] 128888-128964
IGKJ5 IGKJ5*01 F 3q12-q14 GU942438 [1] 1632-1708 CH242-221I5 CU694848 complement(31206-31282)
IGKJ5 IGKJ5*02 F 3q12-q14 CH242-227G10 FP312898 [2] 129229-129305
IMGT notes: ↑
  1. because of non canonical DONOR-SPLICE (att instead of ngt)
IMGT references: ↑
  1. Butler J.E. et al., Antibody repertoire development in fetal and neonatal pigs. VII. Characterization of the preimmune kappa light chain repertoire, J. Immunol, vol. 173, no. 11, 2004, pp. 6794-6805. PUBMED: 15557173
  2. Schwartz, John C et al. “Evolution of the porcine (Sus scrofa domestica) immunoglobulin kappa locus through germline gene conversion.” Immunogenetics vol. 64,4 (2012): 303-11. DOI: 10.1007/s00251-011-0589-6