Alignment of alleles: Atlantic cod (Gadus morhua) IGHV3S5

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   E   Q   L   T   Q   P   E   S       L   T   L   R   P   G   Q   P   L   T
 AJ274745,IGHV3S5*01, 14-04   AGT GAA CAG CTT ACT CAG CCA GAG TCT ... CTG ACT CTC CGA CCT GGT CAA CCT CTG ACC
                                                                                           A                
 AJ274755,IGHV3S5*02, 20-26                                                             C -C- --- --- --- ---
                                                                                                              
 AJ274726,IGHV3S5*03, 09-01   --- --- --- --- --- --- --- --- --- ... --- --- --- --- --- --- --- --- --- ---
                                                                                                              
                                                       ___________________CDR1-IMGT____________________       
                               21  22  23  24  25  26  27  28  29  30  31  32  33  34  35  36  37  38  39  40
                               I   R   C   Q   V   S   Y   S   V   S   S   T   G   Y   A               T   H
 AJ274745,IGHV3S5*01, 14-04   ATC CGC TGT CAG GTC TCT TAT TCT GTT AGT AGC ACT GGC TAC GCG ... ... ... ACA CAT
                                                                                                              
 AJ274755,IGHV3S5*02, 20-26   --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... ... --- ---
                                                                                                              
 AJ274726,IGHV3S5*03, 09-01   --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... ... --- ---
                                                                                                              
                                                                                          _______________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   P   D   G   R   G   L   E   W   I   G   G   I   R   I   G   W
 AJ274745,IGHV3S5*01, 14-04   TGG ATC AGA CAA CCT GAT GGA AGA GGA CTG GAA TGG ATT GGA GGG ATT AGG ATT GGT TGG
                                                                                                              
 AJ274755,IGHV3S5*02, 20-26   --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ---
                                                                                                              
 AJ274726,IGHV3S5*03, 09-01   --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- ---
                                                                                                              
                               IMGT________________                                                           
                               61  62  63  64  65  66  67  68  69  70  71  72  73  74  75  76  77  78  79  80
                               K                   G   A   K   D   S   L   S       S   Q   F   S   L   A   V
 AJ274745,IGHV3S5*01, 14-04   AAA ... ... ... ... GGA GCG AAA GAC TCC CTA AGT ... AGT CAA TTC AGT CTT GCC GTT
                                                                                                              
 AJ274755,IGHV3S5*02, 20-26   --- ... ... ... ... --- --- --- --- --- --- --- ... --- --- --- --- --- --- ---
                                                                                                              
 AJ274726,IGHV3S5*03, 09-01   --- ... ... ... ... --- --- --- --- --- --- --- ... --- --- --- --- --- --- ---
                                                                                                              

                               81  82  83  84  85  86  87  88  89  90  91  92  93  94  95  96  97  98  99 100
                               D   G   S   S   K   T   I   T   L   Q   G   Q   N   M   Q   P   R   D   S   A
 AJ274745,IGHV3S5*01, 14-04   GAT GGC TCC AGT AAA ACA ATT ACT TTG CAA GGG CAG AAC ATG CAG CCT AGA GAC TCA GCT
                                                                                               G            
 AJ274755,IGHV3S5*02, 20-26   --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- G-- --- --- ---
                                                                                               G            
 AJ274726,IGHV3S5*03, 09-01   --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- G-- --- --- ---

                                              _CDR3-IMGT_
                              101 102 103 104 105 106
                               V   Y   F   C   A   R
 AJ274745,IGHV3S5*01, 14-04   GTG TAT TTC TGT GCC AGA      #c
                                       Y            
 AJ274755,IGHV3S5*02, 20-26   --- --- -A- --- --- C-G      #c
                                       Y            
 AJ274726,IGHV3S5*03, 09-01   --- --- -A- --- --- ---      #c

#c: rearranged cDNA

This alignment of allele is automatically generated by Mehdi Yousfi alignment of allele tool.

Created: 21/01/2002
Author: Nathalie Bosc