Table 4 Breed-specific STR expansion/contraction signatures with at least 3 unit of differences
Breed | Chromosome | Position | Genomic region | Variant type | Signature type | Non-signature allele | Signature alleles |
|---|---|---|---|---|---|---|---|
Akita | chr1 | 54147922 | PDE10A | intron variant | Expansion | A(G)0 | A(G)3-4 |
Akita | chr4 | 59092147 | NDST1 | intron variant | Contraction | G(AC)3-4 | G(AC)0 |
Akita | chr8 | 35116671 | RTN1 | intron variant | Expansion | G(GA)0-1 | G(GA)4 |
Akita | chr11 | 22063363 | ZCCHC10 | intron variant | Expansion | C(T)0-1 | C(T)4-5 |
Akita | chr11 | 22070815 | ZCCHC10 | upstream gene variant | Expansion | G(CT)0 | G(CT)3-4 |
Akita | chr13 | 7862683 | ABRA | upstream gene variant | Expansion | A(AC)0-3 | A(AC)6-8 |
Akita | chr14 | 34795865 | LOC102155842 | intron variant | Contraction | G(TTTA)5-8 | G(TTTA)0 |
Alaskan Malamute | chr4 | 63385968 | LOC111095611-LOC119871717 | intergenic region | Expansion | T(A)0-1 | T(A)4 |
Alaskan Malamute | chr5 | 44129368 | SGIP1 | intron variant | Expansion | A(TTCT)0-3 | A(TTCT)8-10 |
Alaskan Malamute | chr11 | 57850532 | LOC100684552-LOC102153773 | intergenic region | Expansion | T(TG)0-3 | T(TG)6-8 |
Alaskan Malamute | chr16 | 19525576 | DPP6 | intron variant | Expansion | C(T)0-2 | C(T)6-8 |
Alaskan Malamute | chr20 | 30027711 | LOC102151998 | intron variant | Contraction | A(AC)4-7 | A(AC)0 |
Alaskan Malamute | chr23 | 27717171 | EAF1 | upstream gene variant | Expansion | C(T)0-3 | C(T)10-12 |
Alaskan Malamute | chr27 | 2582967 | KRT5-KRT6A | intergenic region | Expansion | T(TG)0-5 | T(TG)10-11 |
Bernese Mountain Dog | chr23 | 52282322 | LOC119865448 | intron variant | Contraction | C(T)3-6 | C(T)0 |
Boxer | chr13 | 62408506 | LOC102152779-LOC111098639 | intergenic region | Contraction | C(GT)4-8 | C(GT)0-1 |
Bull Terrier | chr13 | 53005404 | LOC119865325-ADGRL3 | intergenic region | Expansion | T(G)0-1 | T(G)4-5 |
Bull Terrier | chr17 | 8952549 | LOC111090497-LOC106559885 | intergenic region | Expansion | T(TG)0-3 | T(TG)6-8 |
Bull Terrier | chr20 | 38871990 | DOCK3 | intron variant | Contraction | A(AG)6-11 | A(AG)0 |
Chinese Shar-pei | chr29 | 39193715 | CDH17-GEM | intergenic region | Contraction | T(G)7-8 | T(G)0 |
Chow Chow | chr8 | 48904017 | TTLL5 | intron variant | Expansion | A(T)0 | A(T)3-4 |
Chow Chow | chr14 | 55772630 | MET-LOC119867730 | intergenic region | Contraction | A(T)7 | A(T)0-3 |
Chow Chow | chr16 | 52334579 | LOC119874732-LOC119874733 | intergenic region | Expansion | T(A)0-1 | T(A)5 |
Collie | chr12 | 19367375 | LOC119874254-LOC119876904 | intergenic region | Expansion | C(T)0-3 | C(T)8-10 |
Collie | chr18 | 44133652 | PHF21A | intron variant | Expansion | C(T)0-2 | C(T)5-6 |
Doberman Pinscher | chr13 | 12142587 | LOC102156107 | intron variant | Expansion | C(TG)0-2 | C(TG)5-6 |
English Bulldog | chr1 | 48446198 | LOC111095873 | intron variant | Expansion | G(AGAT)0-1 | G(AGAT)8-11 |
English Cocker Spaniel | chr4 | 55189185 | LOC119871642-LOC111095573 | intergenic region | Contraction | C(A)4-8 | C(A)0 |
English Setter | chr3 | 73077170 | RHOH-N4BP2 | intergenic region | Expansion | T(A)0 | T(A)4-5 |
Field Spaniel | chr25 | 20337021 | SH3RF1 | intron variant | Contraction | T(A)3-4 | T(A)0 |
Keeshond | chr18 | 14955131 | ATXN7L1 | intron variant | Contraction | C(GT)3-4 | C(GT)0 |
Manchester Terrier | chr8 | 60703113 | FOXN3 | intron variant | Expansion | T(A)0-2 | T(A)5-10 |
Miniature Pinscher | chr17 | 46146498 | LOC100683097-LRRTM4 | intergenic region | Contraction | C(CT)5-6 | C(CT)0 |
Miniature Schnauzer | chr35 | 25561153 | LOC488316 | intron variant | Expansion | T(A)0-1 | T(A)4 |
Samoyed | chr19 | 43429534 | LOC111091178-LOC111091179 | intergenic region | Expansion | T(TG)0-2 | T(TG)5-9 |
Soft Coated Wheaten Terrier | chr9 | 6703622 | LOC111097523 | downstream gene variant | Expansion | C(T)0 | C(T)3-5 |
Staffordshire Bull Terrier | chr3 | 82791292 | LOC119871405-LOC111095398 | intergenic region | Expansion | T(A)0-3 | T(A)6-7 |
Sussex Spaniel | chr17 | 10256981 | LOC610196-LOC106559867 | intergenic region | Expansion | A(CT)0-3 | A(CT)6-7 |
Sussex Spaniel | chr18 | 30624250 | LOC111091020-LOC102156018 | intergenic region | Expansion | T(A)0-2 | T(A)6-7 |
Sussex Spaniel | chr20 | 16464862 | LOC119864813-LOC111091431 | intergenic region | Expansion | T(TTG)0-1 | T(TTG)5 |
Sussex Spaniel | chr31 | 9390314 | LOC111093521-LOC119867121 | intergenic region | Expansion | C(T)0 | C(T)4-6 |
West Highland White Terrier | chr24 | 21533963 | LOC100687382 | intragenic variant | Contraction | C(CT)5-8 | C(CT)0-1 |