Alignment of alleles: Atlantic salmon (Salmo salar) IGHV5S9

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
                                 S   Q   T   L   T   E   S   G   P       V   V   K   K   P   G   E   S   H   Q
  AF273413,IGHV5S9*01           AGT CAG ACA TTG ACT GAG TCT GGA CCA ... GTG GTT AAA AAG CCT GGA GAA TCC CAC CAA

  AF273417,IGHV5S9*02           --- --- --- --- --- --- --- --- --- ... --- --- --- --- --- --- --- --- --- ---
                                                                                                 Q  
  AF273416,IGHV5S9*03           --- --- --- --- --- --- --- --- --- ... --- --- --- --- --- --- C-- --- --- ---

  AF273411,IGHV5S9*04           --- --- --- --- --- --- --- --- --- ... --- --- --- --- --- --- --- --- --- ---
                                                                             I  
  AF273414,IGHV5S9*05           --- --- --- --- --- --- --- --- --- ... --- A-- --- --- --- --- --- --- --- ---

  AF269077,IGHV5S9*06

  AF269070,IGHV5S9*07

                                                        ___________________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   A   S   G   F   T   F   S   S   Y   W                   M   A
  AF273413,IGHV5S9*01           CTG ACC TGT ACA GCC TCT GGG TTC ACA TTC AGT AGC TAC TGG ... ... ... ... ATG GCT

  AF273417,IGHV5S9*02           --- --- --- --- --- --- --- --- --- --- --- --T --- --- ... ... ... ... --- ---

  AF273416,IGHV5S9*03           --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... ... ... --- ---

  AF273411,IGHV5S9*04           --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... ... ... --- ---
                                                                             N  
  AF273414,IGHV5S9*05           --- --- --- --- --- --- --- --- --- --- --- -A- --- --- ... ... ... ... --- ---
                                             K   V  
  AF269077,IGHV5S9*06               --- --- -A- -T- --- --- --- --- --- --- --- --- --- ... ... ... ... --- ---
                                     S           V  
  AF269070,IGHV5S9*07           --- T-- --- --- -TT --- --- --- --- --- --- --- --- --- ... ... ... ... --- ---

                                                                                            _______________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   P   E   W   I   A   S   S   Y   S   T   T
  AF273413,IGHV5S9*01           TGG ATC AGA CAG GCT CCT GGG AAA GGA CCG GAA TGG ATT GCT TCT AGT TAT AGT ACT ACT

  AF273417,IGHV5S9*02           --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ---

  AF273416,IGHV5S9*03           --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ---

  AF273411,IGHV5S9*04           --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ---

  AF273414,IGHV5S9*05           --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ---

  AF269077,IGHV5S9*06           --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ---

  AF269070,IGHV5S9*07           --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ---

                                IMGT________________
                                 61  62  63  64  65  66  67  68  69  70  71  72  73  74  75  76  77  78  79  80
                                 T                   Y   Y   S   Q   S   V   Q       G   R   F   T   I   S   R
  AF273413,IGHV5S9*01           ACA ... ... ... ... TAT TAC TCC CAG TCA GTC CAG ... GGT AGA TTT ACC ATC TCC AGA

  AF273417,IGHV5S9*02           --- ... ... ... ... --- --- --- --- --- --- --- ... --- --- --- --- --- --- ---

  AF273416,IGHV5S9*03           --- ... ... ... ... --- --- --- --- --- --- --- ... --- --- --- --- --- --- ---

  AF273411,IGHV5S9*04           --- ... ... ... ... --- --- --- --- --- --- --- ... --- --- --- --- --- --- ---

  AF273414,IGHV5S9*05           --- ... ... ... ... --- --- --- --- --- --- --- ... --- --- --- --- --- --- ---

  AF269077,IGHV5S9*06           --- ... ... ... ... --- --- --- --- --- --- --- ... --- --- --- --- --- --- ---

  AF269070,IGHV5S9*07           --- ... ... ... ... --- --- --- --- --- --- --- ... --- --- --- --- --- --- ---


                                 81  82  83  84  85  86  87  88  89  90  91  92  93  94  95  96  97  98  99 100
                                 D   D   S   S   S   K   L   Y   L   Q   M   S   S   L   K   S   E   D   T   A
  AF273413,IGHV5S9*01           GAT GAC TCC AGC AGC AAG CTG TAC CTA CAG ATG AGC AGC CTG AAG AGT GAG GAC ACA GCA

  AF273417,IGHV5S9*02           --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ---

  AF273416,IGHV5S9*03           --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ---

  AF273411,IGHV5S9*04           --- --- --- --- --- --A --A --- --- --- --- --- --- --- --- --- --- --- --- ---

  AF273414,IGHV5S9*05           --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ---

  AF269077,IGHV5S9*06           --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ---
                                                                             N  
  AF269070,IGHV5S9*07           --- --- --- --- --T --- --A --- --- --- --- -A- --- --- --- --- --- --- --- ---

                                                _CDR3-IMGT__
                                101 102 103 104 105 106 107 
                                 V   Y   Y   C   A   R   E
  AF273413,IGHV5S9*01           GTG TAT TAC TGT GCT AGA GAG     #c
                                                     C   L
  AF273417,IGHV5S9*02           --- --- --- --- --- T-T TTA     #c
                                                         V
  AF273416,IGHV5S9*03           --- --- --- --- --- --- -TA     #c
                                                         G
  AF273411,IGHV5S9*04           --- --- --- --- --- --- -G-     #c

  AF273414,IGHV5S9*05           --- --- --- --- --- --- ---     #c

  AF269077,IGHV5S9*06           --- --- --- --- --- --- ---     #c

  AF269070,IGHV5S9*07           --- --- --- --- --- --- ---     #c



#c: rearranged cDNA


Created: 11/12/2001
Author: Nathalie Bosc

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