Table 2.
Translational modification sites observed at OsPLDα1 locus across the wild Oryza species accessions and Oryza cultivars as compared to the Nipponbare reference sequence.
| S.No. | Position# | Alleles* | Codon change | S.No. | Position# | Alleles* | Codon change |
|---|---|---|---|---|---|---|---|
| 1 | 373 | T/C† | — | 54 | 1964 | T/C† | — |
| 2 | 1027 | G/A† | — | 55 | 1967 | C/T† | — |
| 3 | 1043 | G/A† | — | 56 | 1997 | G/A† | — |
| 4 | 1060 | T/C† | — | 57 | 2048 | T/C† | — |
| 5 | 1084 | T/C† | — | 58 | 2077 | C/A†† | Thr395Asn |
| 6 | 1087 | A/T†† | — | 59 | 2081 | A/G† | — |
| 7 | 1087 | A/C†† | — | 60 | 2084 | A/G† | — |
| 8 | 1090 | G/C†† | — | 61 | 2087 | C/A†† | — |
| 9 | 1118 | A/G† | Ile76Val | 62 | 2087 | C/T† | — |
| 10 | 1120 | C/T† | — | 63 | 2089 | A/C†† | Lys399Thr |
| 11 | 1121 | A/G† | Asn77Asp | 64 | 2099 | A/T†† | — |
| 12 | 1123 | C/T† | — | 65 | 2102 | T/A†† | — |
| 13 | 1135 | T/C† | — | 66 | 2108 | G/A† | — |
| 14 | 1141 | G/A† | — | 67 | 2174 | G/A† | — |
| 15 | 1153 | T/C† | — | 68 | 2210 | T/A†† | — |
| 16 | 1156 | C/T† | — | 69 | 2232 | G/A† | — |
| 17 | 1162 | T/C† | — | 70 | 2258 | T/C† | — |
| 18 | 1168 | T/A†† | — | 71 | 2297 | A/C†† | — |
| 19 | 1207 | T/C† | — | 72 | 2335 | C/T† | Pro481Leu |
| 20 | 1210 | G/A† | — | 73 | 2363 | T/C† | — |
| 21 | 1243 | C/T† | — | 74 | 2414 | A/T†† | — |
| 22 | 1258 | T/C† | — | 75 | 2456 | A/T†† | — |
| 23 | 1273 | C/T† | — | 76 | 2498 | C/T† | — |
| 24 | 1275 | G/C†† | Arg128Thr | 77 | 2558 | G/T†† | — |
| 25 | 1282 | C/T† | — | 78 | 2582 | C/T† | — |
| 26 | 1303 | C/T† | — | 79 | 2627 | G/A† | — |
| 27 | 1308 | C/T† | Pro139Leu | 80 | 2636 | A/C†† | — |
| 28 | 1348 | C/T† | — | 81 | 2657 | A/T†† | — |
| 29 | 1369 | T/A†† | Asn159Lys | 82 | 2675 | G/A† | — |
| 30 | 1386 | G/A† | — | 83 | 2715 | C/T† | — |
| 31 | 1387 | C/T† | Arg165His | 84 | 2727 | G/A† | — |
| 32 | 1450 | C/G†† | — | 85 | 2738 | G/A† | — |
| 33 | 1516 | C/T† | — | 86 | 2794 | C/G†† | Ala634Gly |
| 34 | 1570 | A/G† | — | 87 | 2795 | T/C† | — |
| 35 | 1607 | G/A† | Glu239Lys | 88 | 2855 | A/G† | — |
| 36 | 1619 | G/A† | Val729Ile | 89 | 3407 | A/G† | — |
| 37 | 1639 | A/G† | — | 90 | 3425 | G/A† | — |
| 38 | 1723 | T/C† | — | 91 | 3446 | T/C† | — |
| 39 | 1747 | A/G† | — | 92 | 3452 | C/T† | — |
| 40 | 1753 | G/A† | — | 93 | 3461 | C/T† | — |
| 41 | 1760 | T/C† | — | 94 | 3481 | C/T† | — |
| 42 | 1762 | G/A† | — | 95 | 3485 | G/A† | — |
| 43 | 1788 | A/C†† | Glu299Ala | 96 | 3488 | C/T† | — |
| 44 | 1789 | A/T†† | — | 97 | 3494 | A/G† | — |
| 45 | 1808 | G/A† | Asp306Asn | 98 | 3497 | A/G† | — |
| 46 | 1810 | C/T† | — | 99 | 3503 | T/G†† | — |
| 47 | 1825 | A/G† | — | 100 | 3549 | G/A† | — |
| 48 | 1850 | G/A† | Gly320Ser | 101 | 3551 | A/C†† | — |
| 49 | 1858 | T/C† | — | 102 | 3553 | T/C† | Met728Thr |
| 50 | 1870 | G/A† | — | 103 | 3554 | G/A† | — |
| 51 | 1873 | G/A† | — | 104 | 3560 | T/C† | — |
| 52 | 1879 | A/G† | — | 105 | 3563 | T/C† | — |
| 53 | 1962 | A/G† | — |
*In addition to the identified SNPs, 2 insertions including A at nucleotide position 459 and T at nucleotide position 1927 were also detected. Insertion of A459 led to deletion of KFVEGIEDTVGVGKGAT peptide at amino acid position 36. Insertion of T1927 led to amino acid substitutions viz. Leu345Phe, Pro346Ala, Agn347Lys, Gln348Pro, Ser350Leu, Gln351Pro, Gln352Thr, Arg353Lys, Gln372Glu, Tyr373Asp, His374Ser, Ser375Gln, Phe377Arg, and Arg378Trp and a deletion of RIVSFVGGLDLCDGR peptide at amino acid position 354.
#The SNP position was calculated relative to the reference sequence of OsPLDα1 in Nipponbare (RAP locus ID Os01g0172400).
Transitions† and transversions ††observed as nucleotide substitutions.