IMGT Repertoire (IG and TR)

Fct: FUNCTIONALITY
- F: Functional
- P: Pseudogene
- ORF: Open Reading Frame
R: Rearranged
T: Transcribed
Pr: Translated into protein

"+" 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 between 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.
Functionality is shown between brackets, [F] and [P], when the accession number refers to genomic DNA, but not known as being germline or rearranged.

Click on:

IMGT gene name to get the corresponding IMGT/GENE-DB entry,
IMGT allele name to see the corresponding Alignments of alleles,
accession number to get the corresponding IMGT/LIGM-DB entry.

IMGT gene name	IMGT allele name		Fct	R		T	Pr	Positions in the locus	IMGT/LIGM-DB reference sequences					IMGT/LIGM-DB sequences from the literature
IMGT gene name	IMGT allele name		Fct	R		T	Pr	Positions in the locus	Strain	Clone names	Accession numbers	Positions in the sequence (J-REGION)	Secondary accession numbers	Strain		Clone names	Accession numbers	Positions in the sequence (J-REGION)
	TRAJ1		TRAJ1*01	ORF	(1)									U83833	[1]	6064-6130
	TRAJ2		TRAJ2*01	ORF	(2)									U83833	[1]	5504-5557
	TRAJ3		TRAJ3*01	F										U83833	[1]	4671-4734
	TRAJ4		TRAJ4*01	ORF	(3)									U83833	[1]	3412-3477
	TRAJ5		TRAJ5*01	F										U83833	[1]	1010-1075
	TRAJ6		TRAJ6*01	ORF	(4)									U83833	[1]	567-633
	TRAJa	(6)	TRAJa*01	(F)			+	+						U04611	[2]
	TRAJb	(6)	TRAJb*01	(F)			+	+						U04612	[2]
	TRAJc	(6)	TRAJc*01	P	(5)									U04614	[2]

IMGT notes:

(1) Non canonical J-REGION: Phe-Gly-X-Cys instead of Phe-Gly-X-Gly, non canonical J-HEPTAMER and defective DONOR_SPLICE.
(2) Non canonical J-REGION: Phe-Val-X-Gly instead of Phe-Gly-X-Gly, non canonical J-HEPTAMER, non canonical J-NONAMER and defective DONOR_SPLICE.
(3) Defective DONOR_SPLICE and non canonical J-HEPTAMER.
(4) Non canonical J-REGION: Phe-Val-X-Gly instead of Phe-Gly-X-Gly, and non canonical J-HEPTAMER.
(5) Frameshift due to three insertions of one nucleotide.
(6) Temporary designation for not yet mapped TRA J-SEGMENT.

IMGT references:

[1] Wang K. et al., Immunogenetics, 46, 376-382 (1997). PMID:9271627
[2] Göbel T.W et al., Proc. Natl. Acad. Sci. U.S.A., 91, 1094-1098 (1994). PMID:8302838

See also (IMGT Scientific chart):

Created:: 18/09/1998
Last updated:: 22/09/2023
Authors:: Dominique Scaviner

IMGT Repertoire (IG and TR)

Gene table: chicken (Gallus gallus) TRAJ