Skip to main content

Table 1 Polymorphic variation in bovine poly-Q genes

From: Bovine proteins containing poly-glutamine repeats are often polymorphic and enriched for components of transcriptional regulatory complexes

Gene Symbol Gene Coodinates1 Q-tract2 Allele No. Prob. Bt vs Bi4 Prob. beef vs dairy5
ABCF1 BTA23: c28,330,331-28,317,176 G1A1G9A1 3 NS NS
C10ORF26 BTA26: 23,731,487-23,787,266 G8 1 - -
CACNA1A 6 BTA7: 10,407,726-10,660,224 G6 3 < 0.05 < 0.01
CREBBP BTA25: c3,741,183-3,622,474 G5A1G3A1G5 4 < 0.001 NS
EXDL2 BTA10: 83,270,819-83,301,240 G9A1 3 < 0.0001 NS
FAM155A BTA12: c80,851,585-81,459,510 G10 6 < 0.0001 NS
FAM48A BTA12:24,343,037-24,382,185 G1A1G6 3 < 0.0001 NS
FXC1 BTA15: c45,697,647-45,662,984 G10A1 18 < 0.0001 < 0.001
HTT 6 BTA6: 120,080,853-120,204,565 G15 9 < 0.0001 <0.01
LRCH4 BTA25: 38,082,422-38,093,009 G7 3 < 0.0001 NS
MED12 6 BTAX: c49,328,169-49,305,901 G6A1G2A1G1A 5 < 0.01 NS
   1G13A1G1N4G5    
MED15 BTA17: c75,807,030-75,798,191 G6NG1NG3N3G 3 < 0.001 NS
   10NG1NG2N3G    
   3NG1N3G5NG4    
MEF2A BTA21: c5,782,758-5,605,728 G5 1 - -
MLL3 BTA4: c119,034,986-118,841,623 G5A1 4 < 0.0001 NS
NCOR1 BTA19: 34,217,888-34,332,169 G10 2 < 0.0001 NS
RUNX2 BTA23: 19,237,338-19,466,747 G3A2G3A1G5A 1 - -
   1G3A1G2    
ST6GALNAC5 BTA3: c72,520,937-72,308,057 G7 3 < 0.0001 NS
TBP 6 BTAUN: WGA3026_4: 46,413-59,300 G5A1G13 4 < 0.0001 NS
THAP11 BTA18: 34,372,276-34,373,950 G5A1G4A1G1A 5 < 0.05 NS
   1G5    
AR3,6 BTAX: c51,674,166-51,881,948 G3A1G4; 1 - -
   G3A1G4 1 - -
NFYA 3 BTA23: 15,621,415-15,645,446 G3; 1 - -
   G2 1 - -
ODAM 3 BTA6: 88,472,908-88,481,760 A1G4 1 - -
  1. 1BTAU4.0 bovine genome assembly (UCSC genome browser). BTA, chromosome number; UN, chromosome unknown; c, complementary strand.
  2. 2Length and purity of repeat triplet codon. G, A and N followed by a number represent CAG, CAA and other triplet codon tracts, respectively, that were present in the BTAU 4.0 bovine genome assembly. Multiple closely linked Q-tracts are shown as a single entity connected by Ns. Multiple discontinuous Q-tracts within a gene that were assayed are separated by a semi-colon. The Q-tract for NFYA traversed a splice site and is represented by two genomic regions each of which was genotyped.
  3. 3These genes were not ranked highly for potential polymorphic variation using the hierarchical prioritisation criteria.
  4. 4Probability of difference in allele frequencies between Bos taurus taurus and Bos taurus indicus animals (Fisher exact test [25]). NS, not significant.
  5. 5Probability of difference in allele frequencies between Bos taurus taurus beef and dairy breeds (Fisher exact test [25]). NS, not significant.
  6. 6Bolded gene symbols have been linked with human diseases caused by poly-Q tract expansions or mutations [53].