Citing IMGT dynamic tools: Sanou G., Zeitoun G. et al. IMGT® at scale: FAIR, Dynamic and Automated Tools for Immune Locus Analysis, Nucleic Acids Research. 2025;,gkaf1024. doi: 10.1093/nar/gkaf1024 (Free Article) PMID: 41091930.
Program version: v. 

Add information about removed genes/alleles.
May 15th, 2025.

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.

Removed genes/alleles
If a gene/allele existence or name has to be changed, the old name or gene/allele would be deleted and its name won't be reused. They are kept in the gene table for historical reasons.
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 house mouse (Mus musculus) IGKC IMGT group:
IMGT gene nameIMGT allele nameScore for
IMGT allele
confirmation		FctChromosomosal
localization		ExonsR T PrIMGT/LIGM-DB reference sequencesIMGT/LIGM-DB sequences from the literature
Clone namesStrainAccession
numbers		Positions
in the sequence		Secondary
accession
numbers		Clone namesStrainAccession
numbers		Positions
in the sequence
IGKC IGKC*01 F 6C1 (30.0 cM) C-REGION
RTPr
++
 V00807 [6] ° MAP 211-530 V00777 [7] 4616-4935
V00806 [9] (1) ° 49->98
129S1/SvImJ IMGT000127 3174250-3174569
A/J X67003 [10] ° 63-382
BALB/c V01569 [1,4-8] ° 976-1295
BALB/cJ IMGT000123 3186386-3186705
CM000999.2 C57BL/6J IMGT000068 [2,3] 3180800-3181119
C57BL/10 X67007 [10] (2) ° 55-370
CBA X67005 [10] (3) ° 58-373
CE X67004 [10] (3) ° 58-373
DBA/2 X67012 [10] (3) ° 58-373
DBA/2J IMGT000125 3183542-3183861
NZB X67010 [10] (4) ° 61-376
RIII X67006 [10] (5) ° 61-376
IGKC IGKC*02 F 6C1 (30.0 cM) C-REGION AKR X67002 [10] (6) ° 61-376 C58 X67008 [10] (7) ° 14-329
PL X67009 [10] (8) ° <1-314
IGKC IGKC*03 F 6C1 (30.0 cM) C-REGION SJL X67011 [10] (9) ° 58-373
IMGT notes: ↑
  1. Partial C-REGION.
  2. The sequence described in the manuscript is different from the one submitted to the EMBL data library. We refer to the sequence published in the original manuscript. g75, c152, a227, t303 are missing in EMBL flat file (Position numbering according to the present EMBL sequence).
  3. The sequence described in the manuscript is different from the one submitted to the EMBL data library. We refer to the sequence published in the original manuscript. a75, t150, g226, c302, g378 are missing in EMBL flat file (Position numbering according to the present EMBL sequence).
  4. The sequence described in the manuscript is different from the one submitted to the EMBL data library. We refer to the sequence published in the original manuscript. a74, a149, a226, t302, a378 are missing in EMBL flat file (Position numbering according to the present EMBL sequence).
  5. The sequence described in the manuscript is different from the one submitted to the EMBL data library. We refer to the sequence published in the original manuscript. a74, a150, a226, t302, a378 are missing in EMBL flat file (Position numbering according to the present EMBL sequence).
  6. The sequence described in the manuscript is different from the one submitted to the EMBL data library. We refer to the sequence published in the original manuscript. a78, t153, g229, c305 are missing in EMBL flat file (Position numbering according to the present EMBL sequence).
  7. The sequence described in the manuscript is different from the one submitted to the EMBL data library. We refer to the sequence published in the original manuscript. a75, a152, a227, c303 are missing in EMBL flat file and nucleotides 170 to 172 are unresolved (Position numbering according to the present EMBL sequence).
  8. The sequence described in the manuscript is different from the one submitted to the EMBL data library. We refer to the sequence published in the original manuscript. t74, g150, c226, a302 are missing in EMBL flat file (Position numbering according to the present EMBL sequence).
  9. The sequence described in the manuscript is different from the one submitted to the EMBL data library. We refer to the sequence published in the original manuscript. a75, t150, g226, c302 are missing in EMBL flat file (Position numbering according to the present EMBL sequence).
IMGT references: ↑
  1. Altenburger W. et al., DNA sequence of the constant gene region of the mouse immunoglobulin kappa chain, Nucleic Acids Res, vol. 9, no. 4, 1981, pp. 971-981. DOI: 10.1093/nar/9.4.971
  2. Church,D.M. et al., Lineage-specific biology revealed by a finished genome assembly of the mouse, PLoS Biol (2009), PUBMED: 19468303
  3. Church,D.M. et al., Modernizing reference genome assemblies, PLoS Biol, vol. 9, no. 7, 2011, PUBMED: 21750661
  4. der Loo W. and Verdoodt B, Patterns of interallelic divergence at the rabbit b-locus of the immunoglobulin light chain constant region are in agreement with population genetical evidence for overdominant selection, Genetics, vol. 132, no. 4, 1992, pp. 1105-1117. PUBMED: 1459431
  5. Hamlyn P.H. et al., Complete sequence of constant and 3' noncoding regions of an immunoglobulin mRNA using the dideoxynucleotide method of RNA sequencing, Cell, vol. 15, no. 3, 1978, pp. 1067-1075. DOI: 10.1016/0092-8674(78)90290-8
  6. Hieter P.A. et al., Cloned human and mouse kappa immunoglobulin constant and J region genes conserve homology in functional segments, Cell, vol. 22, no. 1 Pt 1, 1980, pp. 197-207. DOI: 10.1016/0092-8674(80)90168-3
  7. Max E.E. et al., The nucleotide sequence of a 5.5-kilobase DNA segment containing the mouse kappa immunoglobulin J and C region genes, J. Biol. Chem, vol. 256, no. 10, 1981, pp. 5116-5120. PUBMED: 6262318
  8. Neumaier P.S. and Zachau H.G, Nucleotide sequence of a region downstream of the mouse CK immunoglobulin gene, Nucleic Acids Res, vol. 11, no. 11, 1983, pp. 3631-3636. DOI: 10.1093/nar/11.11.3631
  9. Seidman J.G. et al., A kappa-immunoglobulin gene is formed by site-specific recombination without further somatic mutation, Nature, vol. 280, no. 5721, 1979, pp. 370-375. DOI: 10.1038/280370a0
  10. Solin M.L. and Kaartinen M, Immunoglobulin constant kappa gene alleles in twelve strains of mice, Immunogenetics, vol. 37, no. 6, 1993, pp. 401-407. DOI: 10.1007/BF00222463