Skip to main content

Advertisement

Table 1 Genotype and allele frequencies of 39 polymorphisms in CAPN1

From: A single nucleotide polymorphism in CAPN1 associated with marbling score in Korean cattle

SNP Position AA change Genotypes and number of animal Minor allele frequency Heterozygosity HWE**
c.579G>A* Exon5 K193K G (187) AG (177) A (53) 0.339 0.448 0.276
c.630A>G* Exon6 T210T A (174) AG (180) G (67) 0.373 0.468 0.078
c.657C>T Exon6 G219G C (13) CT (5) T (5) 0.326 0.44 0.015
c.760-24T>C* Intron6 . T (210) CT (161) C (43) 0.298 0.419 0.148
c.843+96T>C Intron7 . T (10) CT (12) C (2) 0.333 0.444 0.54
c.843+161T>A Intron7 . T (10) AT (12) A (2) 0.333 0.444 0.54
c.843+195T>C Intron7 . T (10) CT (12) C (2) 0.333 0.444 0.54
c.843+269T>C Intron7 . T (10) CT (12) C (2) 0.333 0.444 0.54
c.843+288C>T Intron7 . C (10) CT (12) T (2) 0.333 0.444 0.54
c.843+323C>T Intron7 . C (13) CT (5) T (5) 0.326 0.44 0.015
c.843+330A>G* Intron7 . A (224) AG (156) G (31) 0.265 0.39 0.596
c.1199G>A* Exon11 R400Q G (417) AG (3) A (0) 0.004 0.007 0.941
c.1588G>A* Exon14 V530I G (289) AG (111) A (15) 0.17 0.282 0.293
c.1611+104C>T* Intron14 . C (227) CT (155) T (33) 0.266 0.391 0.369
c.1611+515G>A Intron14 . G (20) AG (1) A (0) 0.024 0.046 0.911
c.1736-164CCTinsdel Intron16 . del (19) insdel (4) ins (1) 0.125 0.219 0.243
c.1736-40A>G Intron17 . A (19) AG (4) G (1) 0.125 0.219 0.243
c.1800+169C>T Intron17 . C (16) CT (5) T (2) 0.196 0.315 0.138
c.1800+195G>A Intron17 . G (19) AG (4) A (1) 0.125 0.219 0.243
c.1869+60G>A Intron18 . G (19) AG (4) A (1) 0.125 0.219 0.243
c.1869+82A>G Intron18 . A (19) AG (4) G (1) 0.125 0.219 0.243
c.1869+91T>G Intron18 . T (19) GT (4) G (1) 0.125 0.219 0.243
c.1869+235G>C* Intron18 . C (128) CG (189) G (102) 0.469 0.498 0.053
c.2065+46A>G Intron20 . A (19) AG (4) G (1) 0.125 0.219 0.243
c.2065+68G>A Intron20 . G (19) AG (4) A (1) 0.125 0.219 0.243
c.2124+19Cinsdel Intron21 . ins (23) insdel (1) del (0) 0.021 0.041 0.917
c.2124+23T>G Intron21 . T (23) GT (1) G (0) 0.021 0.041 0.917
c.2124+74G>A Intron21 . G (22) AG (2) A (0) 0.042 0.08 0.831
c.2148G>A Exon22 A716A G (22) AG (2) A (0) 0.042 0.08 0.831
c.2151*479C>T* 3'UTR . C (342) CT (65) T (5) 0.091 0.165 0.345
c.2151*503Tinsdel 3'UTR . ins (22) insdel (2) del (0) 0.042 0.08 0.831
c.2151*550T>G 3'UTR . T (19) GT (3) G (0) 0.068 0.127 0.731
c.2151*557T>C 3'UTR . T (19) CT (3) C (0) 0.068 0.127 0.731
c.2151*562C>A 3'UTR . C (20) AC (2) A (0) 0.045 0.087 0.823
c.2151*578CTCCCTCCinsdel 3'UTR . ins (19) insdel (3) del (0) 0.068 0.127 0.731
c.2151*697T>C 3'UTR . T (19) CT (3) C (0) 0.068 0.127 0.731
c.2151*765A>G* 3'UTR . A (307) AG (96) G (12) 0.145 0.247 0.187
c.2151*832G>A* 3'UTR . G (335) AG (75) A (4) 0.1 0.18 0.931
c.2151*845A>G* 3'UTR . A (293) AG (112) G (12) 0.163 0.273 0.744
  1. *Frequencies of the six polymorphisms marked by asterisks were determined by genotyping 421 Korean native cattle. Frequencies of the remaining polymorphisms were determined by re-sequencing 24 unrelated Korean native cattle DNAs.
  2. ** P- values of deviation from Hardy-Weinberg equilibrium