Alignment of alleles: Atlantic salmon (Salmo salar) IGHV1S1

When several alleles are shown, the nucleotide mutations and amino acid changes for a given codon are indicated in red letters. These polymorphic mutations are reported in Tables of alleles.
Dashes indicate identical nucleotides. Dots indicate gaps according to the IMGT unique numbering. Blanks indicate partial sequences (blanks at the 5' and/or 3' end).

Germline genomic sequences are needed to confirm if the nucleotide substitutions result from somatic mutations or correspond to allelic polymorphisms.

                                  1   2   3   4   5   6   7   8   9  10  11  12  13  14  15  16  17  18  19  20
                                 G   Q   T   L   T   E   S   G   P       V   V   K   K   P   G   E   S   H   Q
  AF273397,IGHV1S1*01           GGT CAG ACA CTG ACT GAG TCT GGA CCA ... GTG GTT AAA AAA CCT GGA GAA TCC CAC CAA

  AF273398,IGHV1S1*02           --- --- --- --- --- --- --- --- --- ... --- --- --- --- --- --- --- --- --- ---
                                                     D  
  AF273399,IGHV1S1*03           --- --- --- --- --- --C --- --- --- ... --- --- --- --- --- --- --- --- --- ---

                                                        ___________________CDR1-IMGT____________________
                                 21  22  23  24  25  26  27  28  29  30  31  32  33  34  35  36  37  38  39  40
                                 L   T   C   T   G   S   G   F   T   F   S   S   Y   W                   I   T
  AF273397,IGHV1S1*01           CTG ACC TGT ACA GGC TCT GGG TTC ACT TTC AGT AGC TAC TGG ... ... ... ... ATA ACT
                                                                                                             A 
  AF273398,IGHV1S1*02           --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... ... ... --- G--
                                                                                                             A 
  AF273399,IGHV1S1*03           --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... ... ... --- G--

                                                                                            _______________CDR2-
                                 41  42  43  44  45  46  47  48  49  50  51  52  53  54  55  56  57  58  59  60 
                                 W   I   R   Q   A   P   G   K   G   L   E   F   I   A   A   H   Y   N   S   I
  AF273397,IGHV1S1*01           TGG ATC AGA CAG GCT CCT GGG AAA GGA CTA GAA TTT ATA GCA GCA CAT TAT AAC AGC ATA
                                
  AF273398,IGHV1S1*02           --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ---
                                
  AF273399,IGHV1S1*03           --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ---

                                IMGT________________
                                 61  62  63  64  65  66  67  68  69  70  71  72  73  74  75  76  77  78  79  80
                                 N   I               A   Y   S   Q   S   V   Q       G   R   F   T   I   S   R
  AF273397,IGHV1S1*01           AAT ATT ... ... ... GCC TAC TCC CAG TCT GTT CAG ... GGT CGG TTC ACC ATC TCT AGA

  AF273398,IGHV1S1*02           --- --- ... ... ... --- --- --- --- --- --- --- ... --- --- --- --- --- --- ---

  AF273399,IGHV1S1*03           --- --- ... ... ... --- --- --- --- --- --- --- ... --- --- --- --- --- --- ---


                                 81  82  83  84  85  86  87  88  89  90  91  92  93  94  95  96  97  98  99 100
                                 D   D   S   K   Q   Q   V   Y   L   Q   M   N   S   L   N   T   E   D   S   A
  AF273397,IGHV1S1*01           GAT GAC AGC AAG CAG CAG GTG TAT CTC CAG ATG AAC AGC CTG AAC ACT GAA GAC TCC GCT

  AF273398,IGHV1S1*02           --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ---

  AF273399,IGHV1S1*03           --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ---

                                                CDR3-IMGT
                                101 102 103 104 105 106 
                                 V   Y   Y   C   A   R
  AF273397,IGHV1S1*01           GTT TAT TAT TGT GCC AGA     #c

  AF273398,IGHV1S1*02           --- --- --- --- --- ---     #c

  AF273399,IGHV1S1*03           --- --- --- --- --- ---     #c



#c: rearranged cDNA


Created: 11/12/2001
Author: Nathalie Bosc

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