IMGT Repertoire (IG and TR)

Gene table: rainbow trout (Oncorhynchus mykiss) IGHV

"+" 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.

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Rainbow trout (Oncorhynchus mykiss) genes are designated by a number for the subgroup [10], following by the letter S and a number.

IMGT subgroup 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
Strain Clone names Accession numbers Positions in the sequence (V-REGION) Secondary accession numbers Strain Clone names Accession numbers Positions in the sequence (V-REGION)
IGHV1 IGHV1S1 IGHV1S1*01 F RTVH431 M57442 [1] 300-595
IGHV1S2 IGHV1S2*01 F RTVH253 X92501 [2] 282-574
IGHV1S3 IGHV1S3*01 (F) + + cRTVH50 S63348 [3] #c 55-369
IGHV1S4 IGHV1S4*01 (F) + + cRTVH3 X81490 [4] #c 55-348
IGHV1S5 IGHV1S5*01 (F) + + Igh-V4 L28741 [5] #c 106-402
IGHV1S6 IGHV1S6*01 (F) + + TDT255 X81484 [4] (1) #c 1-270
IGHV1S7 IGHV1S7*01 (F) + + cRTVH31 Y08597 [6] #c 61-354
IGHV2 IGHV2S1 IGHV2S1*01 (F) + + cRTVH12 X81509 [4] #c 55-348
IGHV2S2 IGHV2S2*01 F AY872256 [8] 4875-5170
IGHV2S2*02 (F) + + rts.15S X65262 [7] #c 28-315
IGHV2S3 IGHV2S3*01 (F) + + TDT271 X81512 [4] (2) #c 1-276
IGHV3 IGHV3S1 IGHV3S1*01 (F) + + cRTVH19 X81510 [4] #c 53-348
IGHV3S2 IGHV3S2*01 (F) + + Igh-V5.1 L28742 [5] #c 103-399
IGHV3S3 IGHV3S3*01 (F) + + Igh-V5.2 L28805 [5] #c 106-402
IGHV3S4 IGHV3S4*01 (F) + + cRTVH29 Y08595 [6] #c 52-348
IGHV4 IGHV4S1 IGHV4S1*01 (F) + + Igh-V6 L28744 [5] #c 118-411
IGHV5 IGHV5S1 IGHV5S1*01 (F) + + cRTVH6 X81513 [4] #c 55-348
IGHV5S2 IGHV5S2*01 (F) + + Igh-V7 L28745 [5] #c 97-391
IGHV5S3 IGHV5S3*01 (F) + + RBTIGTM1 U04616 [9] #c 55-348
IGHV5S4 IGHV5S4*01 (F) + + RBTIGTM2 U04615 [9] #c 55-342
IGHV5S5 IGHV5S5*01 (F) + + cRTVH28 X81493 [4] #c 55-348
IGHV5S6 IGHV5S6*01 (F) + + cRTVH25 X81492 [4] #c 55-348
IGHV5S7 IGHV5S7*01 (F) + + cRTVH8 X81491 [4] #c 55-348
IGHV5S8 IGHV5S8*01 (F) + + cRTVH30 Y08596 [6] #c 55-348
IGHV5S9 IGHV5S9*01 (F) + + cRTVH32 Y08599 [6] #c 55-345
IGHV5S10 IGHV5S10*01 F AY872256 [8] 60781-61075
IGHV6 IGHV6S1 IGHV6S1*01 F AY872256 [8] 52551-52838 cRTVH1 X81481 [4] #c
IGHV6S2 IGHV6S2*01 (F) + + Igh-V8 L28746 [5] #c 106-393
IGHV6S3 IGHV6S3*01 (F) + + cRTVH18 X81496 [4] #c 55-336
IGHV6S4 IGHV6S4*01 (F) + + cRTVH5 X81494 [4] #c 55-336
IGHV6S5 IGHV6S5*01 (F) + + cRTVH23 X81497 [4] #c 55-336
IGHV6S6 IGHV6S6*01 (F) + + cRTVH26 X81487 [4] (2) #c 1-267
IGHV6S7 IGHV6S7*01 (F) + + cRTVH14 X81495 [4] #c 55-336
IGHV6S8 IGHV6S8*01 (F) + + cRTVH33 Y08600 [6] #c 55-336
IGHV6S9 IGHV6S9*01 (F) + + cRTVH37 Y08602 [6] #c 55-336
IGHV7 IGHV7S1 IGHV7S1*01 (F) + + Igh-V9 L28747 [5] #c 103-405
IGHV8 IGHV8S1 IGHV8S1*01 (F) + + cRTVH2 X81482 [4] #c 55-342
IGHV8S2 IGHV8S2*01 (F) + + cRTVH11 X81501 [4] #c 55-336
IGHV8S3 IGHV8S3*01 (F) + + cRTVH24 X81503 [4] #c 55-339
IGHV8S4 IGHV8S4*01 (F) + + cRTVH9 X81499 [4] #c 55-342
IGHV8S5 IGHV8S5*01 (F) + + cRTVH17 X81488 [4] (3) #c 1-237
IGHV8S6 IGHV8S6*01 (F) + + cRTVH15 X81498 [4] #c 55-342
IGHV8S7 IGHV8S7*01 F + + AY872256 [8] 48580-48871
IGHV8S7*02 (F) + + cRTVH16 X81502 [4] #c 55-342
IGHV8S8 IGHV8S8*01 (F) + + cRTVH10 X81500 [4] #c 55-342
IGHV8S9 IGHV8S9*01 (F) + + cRTVH2.1 X81483 [4] #c 55-342
IGHV8S10 IGHV8S10*01 (F) + + cRTVH34 Y08601 [6] #c 55-339
IGHV8S11 IGHV8S11*01 (F) + + cRTVH41 Y08889 [6] #c 55-342
IGHV9 IGHV9S1 IGHV9S1*01 (F) + + cRTVH21 X81505 [4] #c 52-342
IGHV9S2 IGHV9S2*01 (F) + + cRTVH20 X81504 [4] #c 52-342
IGHV9S3 IGHV9S3*01 (F) + + cRTVH27 X81507 [4] #c 52-342
IGHV9S4 IGHV9S4*01 (F) + + cRTVH22 X81506 [4] #c 52-342
IGHV9S5 IGHV9S5*01 (F) + + cRTVH39 Y08603 [6] #c 52-342
IGHV9S6 IGHV9S6*01 (F) + + cRTVH40 Y08604 [6] #c 58-348
IGHV9S7 IGHV9S7*01 P AY872256 [8] 13555-13845
IGHV10 IGHV10S1 IGHV10S1*01 (F) + + cRTVH4 X81508 [4] #c 52-339
IGHV11 IGHV11S1 IGHV11S1*01 (F) + + cRTVH13 X81511 [4] #c 49-336
IGHV12 IGHV12S1 IGHV12S1*01 (F) + + 521-35 DQ453150 [11] #c 102-404
IGHV13 IGHV13S1 IGHV13S1*01 (F) + + 9-25 DQ453153 [11] #c 110-400

#c: rearranged cDNA.

IMGT notes:
  1. (1) Functional but the V-REGION is partial: AA 1 to 8 are missing (partial FR1-IMGT).
  2. (2) Functional but the V-REGION is partial: AA 1 to 6 are missing (partial FR1-IMGT).
  3. (3) Functional but the V-REGION is partial: AA 1 to 17 are missing (partial FR1-IMGT).
IMGT references:
  1. [1] Matsunaga T. et al., Proc. Natl. Acad. Sci. U.S.A., 87, 7767-7771 (1990). PMID:2120708
  2. [2] Andersson E. et al., Int. Immunol., 3, 527-533 (1991). PMID:1716145
  3. [3] Andersson E. and Matsunaga T., Immunogenetics, 38, 243-250 (1993). PMID:8319974
  4. [4] Andersson E. and Matsunaga T., Immunogenetics, 41, 18-28 (1995). PMID:7806270
  5. [5] Roman T. and Charlemagne J., Immunogenetics, 40, 210-216 (1994). PMID:8039829
  6. [6] Matsunaga T. and Anderson E., Immunogenetics, 45, 201-208 (1997). PMID:8995187
  7. [7] Lee M.A. et al., Mol. Immunol., 30, 641-648 (1993). PMID:8487781
  8. [8] Hansen J.D. et al., Proc. Natl. Acad. Sci. U.S.A., 102, 6919-6924 (2005). PMID:15863615
  9. [9] Hansen J., et al., Mol. Immunol., 31, 499-501 (1994). PMID:8183286
  10. [10] Roman, T. et al., Immunogenetics 43, 325-326 (1996). PMID:9110939
  11. [11] Brown G.D, et al., Immunogenetics 58, 933-936(2006). PMID:17039360
Created:
20/11/2009
Last updated:
22/09/2023
Authors:
Amandine Lacan, Joumana Jabado-Michaloud, Géraldine Folch, Manuel Ruiz, Nathalie Bosc.