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. 

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.

In the realm of IMGT allele confirmation, a scoring system is employed to signify the frequency of occurrences of a specific allele within sequence data. A single star (*) indicates that no instances of the allele have been identified in the literature. Two stars (**) indicate the discovery of one literature sequence containing the allele. If more than one literature sequence is found to contain the allele, it is designated with three stars (***). 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 Naked mole-rat (Heterocephalus glaber) TRBJ IMGT group:
IMGT gene nameIMGT allele nameFctScore for
IMGT allele
confirmation
Chromosomosal
localization
R T PrIMGT/LIGM-DB reference sequencesIMGT/LIGM-DB sequences from the literature
IsolateClone namesAccession
numbers
Positions
in the sequence
(J-GENE-UNIT)
or J-REGION (*)
Secondary
accession
numbers
IsolateClone namesAccession
numbers
Positions
in the sequence
(J-GENE-UNIT)
or J-REGION (*)
TRBJ1-1 TRBJ1-1*01 ORF (1) 22 BK064759 [1] MAP 248917-248992 BK064758 [1] 248926-249001
MEF-2018 IMGT000070 325064-325139
TRBJ1-2 TRBJ1-2*01 ORF (2) 22 BK064759 [1] MAP 249054-249129 BK064758 [1] 249063-249138
MEF-2018 IMGT000070 325201-325276
TRBJ1-3 TRBJ1-3*01 F 22 BK064759 [1] MAP 249622-249699 BK064758 [1] 249631-249708
MEF-2018 IMGT000070 325769-325846
TRBJ1-4 TRBJ1-4*01 ORF (3) 22 BK064759 [1] MAP 250089-250159 BK064758 [1] 250098-250168
MEF-2018 IMGT000070 326230-326306
TRBJ1-5 TRBJ1-5*01 ORF (4) 22 BK064759 [1] MAP 250338-250413 BK064758 [1] 250347-250422
MEF-2018 IMGT000070 326485-326560
TRBJ1-6 TRBJ1-6*01 F 22 BK064758 [1] MAP 250814-250894 MEF-2018 IMGT000070 326952-327032
TRBJ1-6 TRBJ1-6*02 F 22 BK064759 [1] MAP 250805-250885
TRBJ2-1 TRBJ2-1*01 ORF (5) 22 BK064759 [1] MAP 257634-257711 BK064758 [1] 257642-257719
MEF-2018 IMGT000070 333829-333906
TRBJ2-2 TRBJ2-2*01 F 22 BK064759 [1] MAP 257827-257905 BK064758 [1] 257835-257913
MEF-2018 IMGT000070 334022-334100
TRBJ2-3 TRBJ2-3*01 ORF (6) 22 BK064759 [1] MAP 258103-258179 BK064758 [1] 258111-258187
MEF-2018 IMGT000070 334298-334374
TRBJ2-4 TRBJ2-4*01 F 22 BK064759 [1] MAP 258260-258336 BK064758 [1] 258268-258344
MEF-2018 IMGT000070 334455-334531
TRBJ2-5 TRBJ2-5*01 F 22 BK064759 [1] MAP 258356-258432 BK064758 [1] 258364-258440
MEF-2018 IMGT000070 334551-334627
TRBJ2-6 TRBJ2-6*01 F 22 BK064759 [1] MAP 258479-258559 BK064758 [1] 258487-258567
MEF-2018 IMGT000070 334674-334754
TRBJ2-7 TRBJ2-7*01 ORF (7) 22 BK064759 [1] MAP 258678-258752 BK064758 [1] 258685-258759
MEF-2018 IMGT000070 334806-334880

✤ : NCBI accession number that correspond to a previously internal IMGT accession number. See the correspondence table.

IMGT notes:
  1. noncanonical J-NONAMER: gtttttctc instead of ggtttttgt
  2. noncanonical J-NONAMER: cattttaga instead of ggtttttgt
  3. noncanonical J-NONAMER: ggaagctgt instead of ggtttttgt, unexpected J-SPACER length: 7 nt instead of 12 nt, noncanonical J-HEPTAMER: ggcttta instead of caatgtg, noncanonical J-MOTIF: FGXR instead of FGXG
  4. noncanonical J-NONAMER: gtttgccac instead of ggtttttgt
  5. noncanonical J-HEPTAMER: tgccgtg instead of ggctgtg, noncanonical J-NONAMER: gaattctag instead of ggtttttgt
  6. noncanonical J-HEPTAMER: ttctgtg instead of ggctgtg
  7. noncanonical J-NONAMER: ggtttgcga instead of ggtttttgt
IMGT references:
  1. Manso,T. et al., IMGT(R) databases, related tools and web resources through three main axes of research and development, Nucleic Acids Res, vol. 50, no. D1, 2022, pp. D1262-D1272. PUBMED: 34875068