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) TRGV IMGT group:
IMGT sub­groupIMGT 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
(L-V-GENE-UNIT)
or V-REGION (*)
Secondary
accession
numbers
IsolateClone namesAccession
numbers
Positions
in the sequence
(L-V-GENE-UNIT)
or V-REGION (*)
TRGV1TRGV1-1 TRGV1-1*01 F 1 BK064756 [1] MAP 10001-10600 BK064755 [1] 10001-10601
MEF-2018 IMGT000072 10001-10600
TRGV1TRGV1-2 TRGV1-2*01 (1) 1 BK064756 [1] MAP 132618-133119 BK064755 [1] 142136-142637
MEF-2018 IMGT000072 132169-132670
TRGV1TRGV1-3 TRGV1-3*01 (2) 1 BK064755 [1] MAP 195061-195558 MEF-2018 IMGT000072 186965-187462
TRGV1TRGV1-3 TRGV1-3*02 (2) 1 BK064756 [1] MAP 185518-186015 NMR 29 IMGT000083 221619-222116
TRGV1TRGV1-4 TRGV1-4*01 (3) 1 MEF-2018 IMGT000072 MAP 211044-211526 BK064756 [1] 209748-210230
TRGV1TRGV1-4 TRGV1-4*02 (4) 1 BK064755 [1] MAP 219294-219775
TRGV1TRGV1-5 TRGV1-5*01 (5) 1 BK064756 [1] MAP 252466-252964 BK064755 [1] 262015-262513
MEF-2018 IMGT000072 253617-254115
TRGV2TRGV2 TRGV2*01 (6) 1 BK064756 [1] MAP <139354-139601 * BK064755 [1] <148873-149120 *
MEF-2018 IMGT000072 138905-139152 *
TRGV3TRGV3-1 TRGV3-1*01 ORF (7) 1 BK064756 [1] MAP 31692-32186 BK064755 [1] 31691-32185
MEF-2018 IMGT000072 31560-32054
TRGV3TRGV3-2 TRGV3-2*01 ORF (8) 1 BK064756 [1] MAP 151838-152338 BK064755 [1] 161359-161859
MEF-2018 IMGT000072 151394-151894
TRGV4TRGV4-1 TRGV4-1*01 (9) 1 BK064756 [1] MAP 41457-41935 BK064755 [1] 41458-41936
MEF-2018 IMGT000072 41325-41803
TRGV4TRGV4-2 TRGV4-2*01 ORF (10) 1 BK064756 [1] MAP 284217-284711 BK064755 [1] 293779-294273
MEF-2018 IMGT000072 286260-286754
TRGV4TRGV4-3 TRGV4-3*01 (5) 1 BK064756 [1] MAP 286734-287226 BK064755 [1] 296296-296788
MEF-2018 IMGT000072 288777-289269
TRGVATRGVA TRGVA*01 (11) 1 BK064756 [1] MAP <37426->37610 * BK064755 [1] <37426->37610 *
MEF-2018 IMGT000072 37294-37478 *
TRGVBTRGVB TRGVB*01 (12) 1 BK064756 [1] MAP 44443-44701 * BK064755 [1] 44444-44702 *
MEF-2018 IMGT000072 44311-44569 *
TRGVCTRGVC TRGVC*01 (13) 1 BK064756 [1] MAP 45749-46040 * BK064755 [1] 45746-46037 *
MEF-2018 IMGT000072 45613-45904 *
TRGVDTRGVD TRGVD*01 (14) 1 BK064756 [1] MAP <301164-301454 * MEF-2018 IMGT000072 305280-305570 *
TRGVDTRGVD TRGVD*02 (14) 1 BK064755 [1] MAP <308376-308661 *

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

IMGT notes:
  1. frameshifts in V-REGION: several insertions and deletions
  2. frameshift in L-PART1: insertion of 2 nt causing defectuous DONOR-SPLICE, STOP-CODON in V-REGION: position 45
  3. frameshift in V-REGION: deletion of 1 nt in FR3-IMGT
  4. frameshifts in V-REGION: deletion of 1 nt and deletion of 1 nt in FR3-IMGT
  5. frameshift in V-REGION: insertion of 2 nt in CDR1-IMGT
  6. no L-PART1, no L-PART2, frameshifts in V-REGION: several insertions and deletions
  7. deletions in FR3-IMGT: 4 AA are missing, noncanonical V-NONAMER: cacaagatt instead of ctgaaaatt
  8. deletions in FR3-IMGT: 4 AA are missing, noncanonical V-NONAMER: cacaagatc instead of ctgaaaatt
  9. frameshift in V-REGION: insertion of 1 nt in FR1-IMGT
  10. noncanonical V-NONAMER: acaagaaca instead of ctgaaaatt
  11. truncated pseudogene not assigned to subgroups with functional genes
  12. no L-PART1, frameshifts in V-REGION: several insertions and deletions
  13. no L-PART1, STOP-CODON in V-REGION: position 13, no V-NONAMER
  14. no L-PART1, truncated pseudogene not assigned to subgroups with functional genes
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