HLA Sequences, July 2008

Steven GE Marsh

Anthony Nolan Research Institute

The HLA sequences included in this compilation are taken from publications listed in the WHO Nomenclature reports (1-10). Where discrepancies have arisen between reported sequences, the original authors have been contacted where possible, and necessary amendments to published sequences have been incorporated into this alignment. Future sequencing may identify errors in this list and we would welcome any evidence that helps to maintain the accuracy of this compilation.

In the sequence alignments, for each locus alleles have been aligned to a reference sequence and identity between residues is indicated by a hyphen (-). Unavailable sequence information is indicated by an asterisk (*). Minimum gaps in the sequence, indicated by a period (.), are inserted to maintain the alignment between alleles showing variation in length. The exon intron boundaries are indicated by a pipe (|). In the amino acid alignments premature stop codons are indicated by an X.

Numbering is given both for individual nucleotides and also for codons. The nucleotides are numbered starting at 1 for the first nucleotide of the codon for the initiation methionine. The numbering of the codons of the mature protein, after cleavage of the signal sequence begins at +1, while the signal sequence is numbered backwards from -1.

This series of sequence alignments updates those published previously (11-19) and those versions previously made available from this web site.

References

1. Bodmer JG, Marsh SGE, Albert E, Bodmer WF, Bontrop RE, Dupont B, Erlich HA, Hansen JA, Mach B, Mayr WR, Parham P, Petersdorf EW, Sasasuki T, Schreuder GMT, Strominger JL, Svejgaard A, Terasaki PI. Nomenclature for factors of the HLA system, 1998. Tissue Antigens, 53, 407-446, 1999. Human Immunology, 60, 361-395, 1999. European Journal of Immunogenetics, 26, 81-116, 1999.
   
2. Bodmer JG, Marsh SGE, Albert E, Bodmer WF, Bontrop RE, Charron D, Dupont B, Erlich HA, Fauchet R, Mach B, Mayr WR, Parham P, Sasasuki T, Schreuder GMT, Strominger JL, Svejgaard A, Terasaki PI. Nomenclature for factors of the HLA system, 1996. Tissue Antigens 1997: 49: 297-321.
   
3. Bodmer JG, Marsh SGE, Albert E, Bodmer WF, Bontrop RE, Charron D, Dupont B, Erlich HA, Mach B, Mayr WR, Parham P, Sasasuki T, Schreuder GMT, Strominger JL, Svejgaard A, Terasaki PI. Nomenclature for factors of the HLA system, 1995. Tissue Antigens 1995: 46: 1-18.
   
4. Bodmer JG, Marsh SGE, Albert E, Bodmer WF, Dupont B, Erlich HA, Mach B, Mayr WR, Parham P, Sasasuki T, Schreuder GMT, Strominger JL, Svejgaard A, Terasaki PI. Nomenclature for factors of the HLA system, 1994. Tissue Antigens 1994: 44: 1-18.
   
5. Bodmer JG, Marsh SGE, Albert E, Bodmer WF, Dupont B, Erlich HA, Mach B, Mayr WR, Parham P, Sasasuki T, Schreuder GMT, Strominger JL, Svejgaard A, Terasaki PI. Nomenclature for factors of the HLA system, 1991. In: T. Tsuji, M. Aizawa and T. Sasazuki ed. HLA 1991, Oxford: Oxford University Press, 1992: 17-31.
   
6. Bodmer JG, Marsh SGE, Albert E, Bodmer WF, Dupont B, Erlich HA, Mach B, Mayr WR, Parham P, Sasasuki T, Schreuder GMT, Strominger JL, Svejgaard A, Terasaki PI. Nomenclature for factors of the HLA system, 1990. Tissue Antigens 1991: 37: 97-104.
   
7. Bodmer JG, Marsh SGE, Parham P, Erlich HA, Albert E, Bodmer WF, Dupont B, Mach B, Mayr WR, Sasasuki T, Schreuder GMT, Strominger JL, Svejgaard A, Terasaki PI. Nomenclature for factors of the HLA system, 1988. Tissue Antigens 1990: 35: 1-8.
   
8. Marsh SGE, Bodmer JG, Albert ED, Bodmer WF, Bontrop RE, Dupont B, Erlich HA, Hansen JA, Mach B, Mayr WR, Parham P, Petersdorf EW, Sasasuki T, Schreuder GMT, Strominger JL, Svejgaard A, Terasaki PI. Nomenclature for factors of the HLA system, 2000. Tissue Antigens 2001: 57: 236-283.
   
9. Marsh SGE, Albert ED, Bodmer WF, Bontrop RE, Dupont B, Erlich HA, Geraghty DE, Hansen JA, Mach B, Mayr WR, Parham P, Petersdorf EW, Sasazuki T, Schreuder GMT, Strominger JL, Svejgaard A, Terasaki PI. Nomenclature for factors of the HLA system, 2002. Tissue Antigens 2002: 60: 407-464.
   
10. Marsh SGE, Albert ED, Bodmer WF, Bontrop RE, Dupont B, Erlich HA, Geraghty DE, Hansen JA, Hurley CK, Mach B, Mayr WR, Parham P, Petersdorf EW, Sasazuki T, Schreuder GMTh, Strominger JL, Svejgaard A, Terasaki PI, Trowsdale J. Nomenclature for factors of the HLA system, 2004
    Tissue Antigens 2005: 65: 301-368.
    International Journal of Immunogenetics 2005: 32: 107-160.
    
11. Arnett KL, Parham P. HLA Class I nucleotide sequences, 1995. Tissue Antigens 1995: 46(3-2): 217-257.
    
12. Mason PM, Parham P. HLA Class I nucleotide sequences, 1998. Tissue Antigens 1998: 51: 417-466.
    
13. Marsh SGE, Bodmer JG. HLA Class II region nucleotide sequences, 1995. Tissue Antigens: 1995: 46: 258-280
    
14. Marsh SGE, Bodmer JG. HLA Class II region nucleotide sequences, 1994. European Journal of Immunogenetics: 1994: 41: 519-551.
    
15. Marsh SGE, Bodmer JG. HLA Class II nucleotide sequences, 1992. Tissue Antigens: 1992: 40: 229-43.
    
16. Marsh SGE, Bodmer JG. HLA Class II nucleotide sequences, 1991. Tissue Antigens: 1991: 37: 181-9.
    
17. Marsh SGE, Bodmer JG. HLA-DRB nucleotide sequences, 1990. Immunogenetics: 1990: 31: 141-4.
    
18. Marsh SGE. HLA Class II Region Sequences, 1998. Tissue Antigens: 1998: 51: 467-507.
    
19. Cox ST, McWhinnie AJ, Robinson J, Marsh SGE, Parham P, Madrigal JA, Little AM. Cloning and sequencing of full-length HLA-B and -C genes, Tissue Antigens: 2003: 61: 20-48.