Skip to main content

Table 1 Haplotype and diplotype frequencies for PRNP codons 112,136, 141, 154, 171, 237 in diverse samples of U.S. sheep

From: Ovine reference materials and assays for prion genetic testing

    Allele frequency
Codon haplotype or diplotype    Panel version Breeds on panels
136
154
171
112
136
141
154
171
237
Genbank accessiona All USMARC sheep sequencedb V1.1
V2.0
V2.4
V2.4 Composite Dorset Rambouillet Texel Suffolk Finnsheep Romanov Katahdin All Dorper Dorper White Dorper Navajo-Churro
    (n = 953) (n = 168) (n = 96) (n = 29) (n = 18) (n = 17) (n = 18) (n = 16) (n = 19) (n = 19) (n = 15) (n = 16) (n = 8) (n = 8) (n = 1
ARQ MALRQL AY907689 0.517 0.534 0.522 0.385 0.270 0.457 0.194 0.729 0.868 0.921 0.533 0.719 0.750 0.688 0.500
ARQ TALRQL FJ404778 0.072 0.024 0.035 0.029 -c 0.014 - 0.021 - - - - - - -
ARQ MAFRQL FJ404776 0.009 0.002 - - 0.008 - - - - - - - - - -
ARQ MAFRQP FJ404776 0.001d - - - - - - - - - - - - - -
ARR MALRRL AY907691 0.288 0.357 0.359 0.534 0.694 0.441 0.444 0.250 0.105 0.053 0.467 0.156 - 0.313 -
ARH MALRHL AY907683 0.017 0.027 0.042 - - - 0.250 - - - - - - - -
AHQ MALHQL AY909542 0.009 0.024 0.016 - 0.028 0.088 0.111 - - - - - - - -
VRQ MVLRQL AY907685 0.035 0.027 0.021 0.052 - - - - 0.026 0.026 - 0.125 0.250 - -
ARK MALRKL EF189728 0.054 0.006 0.005 - - - - - - - - - - - 0.500
TRQd MTLRQLe AJ567987 - - - - - - - - - - - - - - -
ARQ, ARQ MALRQL, MALRQL AY907689 0.300 0.333 0.333 0.172 0.056 0.235 - 0.313 0.737 0.842 0.200 0.500 0.500 0.500 -
ARQ, ARQ MALRQL, TALRQL FJ404777 0.069 0.030 0.021 0.069 - - - 0.188 - - - - - - -
ARQ, ARQ TALRQL, TALRQL FJ404778 0.014 0.006 0.010 - - - - 0.063 - - - - - - -
ARQ, ARQ MALRQL, MAFRQL EF189724 0.004 0.006 - - 0.056 - - - - - - - - - -
ARQ, ARQ MAFRQL, MAFRQL naf 0.001 - - - - - - - - - - - - - -
ARQ, ARQ MALRQL, MAFRQP na 0.001d - - - - - - - - - - - - - -
ARQ, ARQ MAFRQL, MAFRQP FJ404776 0.008d - - - - - - - - - - - - - -
ARQ, ARQ MAFRQP, MAFRQP na 0.001d - - - - - - - - - - - - - -
ARQ, ARQ MAFRQL, TALRQL na - - - - - - - - - - - - - - -
ARQ, ARQ MAFRQP, TALRQL na - - - - - - - - - - - - - - -
ARQ, ARR MALRQL, MALRRL AY907684 0.254 0.262 0.271 0.276 0.333 0.412 0.111 0.125 0.211 0.105 0.667 0.188 - 0.375 -
ARQ, ARR TALRQL, MALRRL FJ404777 0.046 0.030 0.021 - - 0.059 - 0.250 - - - - - - -
ARQ, ARR MAFRQL, MALRRL na 0.011 - - - - - - - - - - - - - -
ARQ, ARR MAFRQP, MALRRL na 0.003d - - - - - - - - - - - - - -
ARQ, ARH MALRQL, MALRHL AY907693 0.015 0.024 0.042 - - - 0.222 - - - - - - - -
ARQ, ARH TALRQL, MALRHL na 0.001 - - - - - - - - - - - - - -
ARQ, ARH MAFRQL, MALRHL na 0.001 - - - - - - - - - - - - - -
ARQ, ARH MAFRQP, MALRHL na - - - - - - - - - - - - - - -
ARQ, AHQ MALRQL, MALHQL AY907687 0.002 0.006 0.010 - - - 0.056 - - - - - - - -
ARQ, AHQ TALRQL, MALHQL na - - - - - - - - - - - - - - -
ARQ, AHQ MAFRQL, MALHQL na - - - - - - - - - - - - - - -
ARQ, AHQ MAFRQP, MALHQL na - - - - - - - - - - - - - - -
ARQ, VRQ MALRQL, MVLRQL AY907690 0.029 0.042 0.031 0.034 - - - - 0.053 0.053 - 0.250 0.500 - -
ARQ, VRQ TALRQL, MVLRQL FJ404777 - 0.006 - 0.034 - - - - - - - - - - -
ARQ, VRQ MAFRQL, MVLRQL na 0.001 - - - - - - - - - - - - - -
ARQ, VRQ MAFRQP, MVLRQL na - - - - - - - - - - - - - - -
ARQ, ARK MALRQL, MALRKL EF189727 0.037 0.006 0.010 - - - - - - - - - - - 1.000
ARQ, ARK TALRQL, MALRKL na - - - - - - - - - - - - - - -
ARQ, ARK MAFRQL, MALRKL na - - - - - - - - - - - - - - -
ARQ, ARK MAFRQP, MALRKL na - - - - - - - - - - - - - - -
ARR, ARR MALRRL, MALRRL AY907691 0.103 0.185 0.188 0.379 0.500 0.176 0.222 0.063 - - 0.133 0.063 - 0.125 -
ARR, ARH MALRRL, MALRHL AY907681 0.005 0.018 0.021 - - - 0.167 - - - - - - - -
ARR, AHQ MALRRL, MALHQL AY907682 0.008 0.030 0.021 - 0.056 0.059 0.167 - - - - - - - -
ARR, VRQ MALRRL, MVLRQL AY907688 0.020 0.006 0.010 0.034 0.000 - - - - - - - - - -
ARR, ARK MALRRL, MALRKL EF189729 0.026 - - - - - - - - - - - - - -
ARH, ARH MALRHL, MALRHL AY907683 0.001 0.006 0.010 - - - 0.056 - - - - - - - -
ARH, AHQ MALRHL, MALHQL AY907692 0.001 - - - - - - - - - - - - - -
ARH, VRQ MALRHL, MVLRQL AY907694 0.001 - - - - - - - - - - - - - -
ARH, ARK MALRHL, MALRKL EF189726 0.007 - - - - - - - - - - - - - -
AHQ, AHQ MALHQL, MALHQL AY909542 0.001 0.006 - - - 0.059 - - - - - - - - -
AHQ, VRQ MALHQL, MVLRQL AY907686 0.001 - - - - - - - - - - - - - -
AHQ, ARK MALHQL, MALRKL EF189725 0.004 - - - - - - - - - - - - - -
VRQ, VRQ MVLRQL, MVLRQL AY907685 0.004 - - - - - - - - - - - - - -
VRQ, ARK MVLRQL, MALRKL EF189722 0.008 - - - - - - - - - - - - - -
ARK, ARK MALRKL, MALRKL EF189728 0.012 - - - - - - - - - - - - - -
  1. aGenBank accession numbers for sequences from control animals on MSCP27 with the relavant diplotype (where available).
  2. bSheep born 1995 to 2007. Allele or genotype frequencies that add up to 0.999 or 1.001 are the result of rounding errors.
  3. cNo minor alleles detected
  4. dSheep with 237P allele are descendents of a single composite ram
  5. eNot present in U.S. populations surveyed. GenBank accession number correspends to Billinis et al. 2004. J. Gen. Virol. 85, 547-554
  6. fNot available