Table 4 Primer sequences for the bovine ACSL1 gene applied for annotation confirmation, screening for polymorphisms and genotyping
From: Association of an ACSL1 gene variant with polyunsaturated fatty acids in bovine skeletal muscle
| Primer | Sequence (5' → 3') | Gene region | Amplicon (bp) | Position in reference sequence | AccNo. of reference sequence | Application* |
|---|---|---|---|---|---|---|
|
ACSL1_F1 ACSL1_R1 |
CCGAGCCCCAACCGAGAC TGGACGCTGTTCTTGAGTGGTG | intron 1 -promoter | 844 |
1918181 - 1918198 1919003 - 1919024 | NW_001494406.2 | SNP |
|
ACSL1_E1_F3 ACSL1_E1SF |
GACCCGAGCCCCAACCGAG GTTGAGCCACCACAATTTACTC | intron 1 -promoter | 497 |
1918178 - 1918196 1918674 - 1918653 | NW_001494406.2 | SNP |
|
ACSL1_E1SR ACSL1_R1 |
GGACTGCCCTGGATTTCACAAG TGGACGCTGTTCTTGAGTGGTG | promoter | 413 |
1918612 - 1918633 1919003 - 1919024 | NW_001494406.2 | SNP |
|
ACSL1_F2 ACSL1_R2 |
TCGCTGCTGAAGTCCTGTCTG GCTCTAATGCCCCCGTTGATG | exon 2 | 501 |
1897290 - 1897310 1897770 - 1897790 | NW_001494406.2 | SNP |
|
ACSL1_F3 ACSL1_R3 |
TTGCGTGGGAGAGAGTTGTG TCAGGTGGAGGATTTATGTCAG | exon 3 | 384 |
1882758 - 1882777 1883120 - 1883141 | NW_001494406.2 | SNP |
|
ACSL1_F4 ACSL1_R4 |
GCATCCACACTCCATAGAAAC AATAAAGAAGCAAAACTCAGACC | exon 4 | 345 |
1881998 - 1882018 1882320 - 1882342 | NW_001494406.2 | SNP |
|
ACSL1_F5 ACSL1_R5 |
ATGAAAGGGAAAAGTGAAAGTG CTTGAGTTGGACCTGATGCTG | exon 5 | 457 |
1878288 - 1878309 1878724 - 1878744 | NW_001494406.2 | SNP |
|
ACSL1_F6 ACSL1_R6 |
CGGCTGGAAGTAAAGAGACAC TTGTGTTCTTCATCCTCCTTTC | exon 6 | 574 |
1875840 - 1875860 1876392 - 1876413 | NW_001494406.2 | SNP |
|
ACSL1_F7 ACSL1_R7 |
GTTCTCTTTTACAGGACCAG CAGGGATGCTTTACTTACTC | exon 7 | 600 |
1875542 - 1875561 1876122 - 1876141 | NW_001494406.2 | SNP |
|
ACSL1_F8_9 ACSL1_R8_9 |
TGGGTGATGTAAATGTGTGAGG ATGATAGGAATGGCAGTGGAGAC |
exons 8-9 | 750 |
1872567 - 1872588 1873294 - 1873316 | NW_001494406.2 | SNP |
|
ACSL1_F10 ACSL1_R10 |
ATCTGTATTTCAGGTACTGTTTC GTTTATGGGCTTCTCTCACG | exon 10 | 287 |
1871656 - 1871678 1871923 - 1871942 | NW_001494406.2 | SNP |
|
ACSL1_F11 ACSL1_R11 |
TACACACTTGAACTTACCAG TGTGCTCTGAAATAAATGG | exon 11 | 314 |
1869171 - 1869190 1869466 - 1869484 | NW_001494406.2 | SNP |
|
ACSL1_F12 ACSL1_R12 |
TCTGTATTGTGCCTTCTGATG GGAAACTGGGCTGAAATGC | exon 12 | 371 |
1866801 - 1866821 1867153 - 1867171 | NW_001494406.2 | SNP |
|
ACSL1_F13 ACSL1_R13 |
TCTCACACAATAAAGGGGTAGG TCCACATCTTCACCAACACTC | exon 13 | 516 |
1864669 - 1864690 1865164 - 1865184 | NW_001494406.2 | SNP |
|
ACSL1_F14 ACSL1_R14 |
AAGCCGCCCAGGAATAACAC TGCCACAAACCCACGACACT | exon 14 | 516 |
1863888 - 1863907 1864384 - 1864403 | NW_001494406.2 | SNP |
|
ACSL1_F15 ACSL1_R15 |
GACTTGTGTTTATTTCTGCCTG TGGGCTGAGGTTTCTAATCC | exon 15 | 524 |
1862774 - 1862795 1863278 - 1863297 | NW_001494406.2 | SNP |
|
ACSL1_F16 ACSL1_R16 |
TGCTGAGAAGTGGCTGGTTAC CATGAGAACAGGGCTTATTGG | exon 16 | 247 |
1860135 - 1860155 1860361 - 1860381 | NW_001494406.2 | SNP |
|
ACSL1_F17 ACSL1_R17 |
ATGCGAGGGAGAAAGAGG CCGCTAACAAAAAGAACAGTG | exon 17 | 427 |
1859039 - 1859056 1859445 - 1859465 | NW_001494406.2 | SNP |
|
ACSL1_F18 ACSL1_R18 |
GGCAAACTTCCCATTACACTG GACTCCTTCATCCCTTCTCTG | exon 18 | 512 |
1857386 - 1857406 1857877 - 1857897 | NW_001494406.2 | SNP |
|
ACSL1_F19_20 ACSL1_R19_20 |
GCCAAAGCACACCACTCTC CGAAGCAGATAATAAGGAACTAC | exons 19-20 | 517 |
139425 - 139443 139919 - 139941 | NW_930554.1 | SNP |
|
ACSL1_F21 ACSL1_R21 |
CACCCGCCTTTGTAACTG GTCCTGATTCTGTCCTGATGTC | exon 21 | 548 |
138819 - 138836 139345 - 139366 | NW_930554.1 | SNP |
|
ACSL1_UTR_F31 ACSL1_UTR_R3 |
AAACCCTCTGGTCCTCTTGCG CAATGGCAGGAAGGGAGGGAG | exon 21 | 404 |
138633 - 138653 139016 - 139036 | NW_930554.1 | SNP |
|
ACSL1_UTR_F2 ACSL1_UTR_R21 |
GAGTTTTCCAGATTCCTATGTCC CCTGTTACCCTCCCTTCCCTG | exon 21 | 650 |
137966 - 137988 138595 - 138615 | NW_930554.1 | SNP |
|
ACSL1_UTR_F11 ACSL1_UTR_R1 |
ATGCGACTGCTGACATGAAAAAC AAATAAATGCTCTTCTGTCGTAATG | exon 21 | 527 |
137530 - 137552 138032 - 138056 | NW_930554.1 | SNP |
|
ACSL1_E1_F3 ACSL1_E1_R2 |
GACCCGAGCCCCAACCGAG GCTCGTAGGCTGCAGCGAG | intron 1-promoter | 220 |
1918178 - 1918196 1918379 - 1918397 | NW_001494406.2 | GT |
|
ACSL1_F7 ACSL1_R7 |
GTTCTCTTTTACAGGACCAG CAGGGATGCTTTACTTACTC | exon 7 | 600 |
1875542 - 1875561 1876122 - 1876141 | NW_001494406.2 |
GT (PCR-RFLP) |
|
ACSL1_E1_F5 ACSL1_E1_R3 ACSL1_E1_F7_T ACSL1_E1_R8_C |
GGAGGGAACTCGGGGAGCC AGGGCGGGGCTGAGACGG GCTATTTAAGGGTGCCGCCGT GCAGCCAGCTCTCGGAAGTAG | promoter |
451 316 175 |
1918052 - 1918070 1918485 - 1918502 1918328 - 1918348 1918348 - 1918368 | NW_001494406.2 |
GT (Tetra-ARMS PCR) |
|
ACSL1_E1_F2 ACSL1_E5_R1 |
CGGAGGAGACTGTGGCTTAG CTGAGCGAAGATGCCAATAAAC |
exons 1-5 | 505 |
38 - 58 521 - 543 | NM_001076085.1 | cDNA |
|
ACSL1_E5_F1 ACSL1_E12_R2 |
CAGTTTATTGGCATCTTCGCTC GGAAGATGGTGGGTTGAAGG |
exons 5-12 | 649 |
519 - 541 1148 - 1168 | NM_001076085.1 | cDNA |
|
ACSL1_E11_F2 ACSL1_E18_R1 |
CCATATGTTTGAGAGAGTTGTAG ATGTACTCCCCCTGTGCCAG | exons 11-18 | 735 |
1046-1069 1761 - 1781 | NM_001076085.1 | cDNA |
|
ACSL1_E17_F2 ACSL1_E21_R2 |
CTGGATAAAGACGGCTGGTTG GAGTTCAGGGTGGAGATAGATG | exons 17-21 | 399 |
1665 - 1686 2042 - 2064 | NM_001076085.1 | cDNA |
| ACSL1_E21_R3 | GTCAAACTCCCCTCCGCTTC | exons 17-21 | 540 | 2185 - 2205 | NM_001076085.1 | cDNA, RT |
| ACSL1_E21_R4 | CAGAAAGAGCAAAGTCCTAACC | 2454 - 2476 | NM_001076085.1 | cDNA, RT |
