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Table 1 Structural characteristics of Dicer-like, Argonaute and RNA dependent RNA Polymerase genes identified in rice

From: Genome-wide identification, organization and phylogenetic analysis of Dicer-like, Argonaute and RNA-dependent RNA Polymerase gene families and their expression analysis during reproductive development and stress in rice

Serial No. Gene Name Accession Numbers of Gene Models TIGR Locus ID Coordinates (5'-3') ORF Length (bp) Protein No. of Introns
   TIGR (Release 5)     Length (a.a.) Mol. Wt. (Da) pI  
DICER-like
1 OsDCL1a 12003.m05835 LOC_Os03g02970 1183184 – 1174351 5655 1884 210202.11 6.64 18
2 OsDCL2a 12003.m08967 LOC_Os03g38740 21469900 – 21455783 4236 1411 158493.38 6.86 19
3 OsDCL2b 12009.m04723
12009.m50214
12009.m50215
LOC_Os09g14610 8649185 – 8646060 1080 359 39984.82 7.27 2
4 OsDCL3a 12001.m12915 LOC_Os01g68120 39932566 – 39922935 4797 1598 178239.94 6.65 26
5 OsDCL3b 12010.m06268 LOC_Os10g34430 18031152 – 18042777 4719 1572 177717.08 6.7 25
6 SHO1 12004.m09269
12004.m101860
12004.m78968
12004.m78969
LOC_Os04g43050 25262283 – 25255247 3180 1059 119863.82 7.55 25
7 OsDCL1c 12005.m06289 LOC_Os05g18850 10924931 – 10927291 957 318 34954.29 8.7 2
8 OsDCL1b 12006.m07173 LOC_Os06g25250 14769389 – 14772506 903 300 33335.89 5 2
ARGONAUTES
1 OsAGO1a 12002.m09547
12002.m100310
LOC_Os02g45070 27335674 – 27324616 3252 1083 120463 9.43 22
2 OsAGO1b 12004.m09728
12004.m101624
LOC_Os04g47870 28214275 – 28207729 3309 1102 121632.35 9.86 22
3 OsAGO1c 12002.m10870 LOC_Os02g58490 35762233 – 35755714 3039 1012 113158 9.53 22
4 OsAGO1d 12006.m091803
12006.m09654
LOC_Os06g51310 31069900 – 31076078 3120 1039 115923.39 9.27 22
5 OsAGO2 12004.m10147 LOC_Os04g52540 31020218 – 31024093 3105 1038 111444.34 9.7 2
6 OsAGO3 12004.m10148 LOC_Os04g52550 31025382 – 31030370 3333 1110 122752.46 9.45 4
7 OsAGO4a 12001.m08283
12001.m150415
12001.m150416
12001.m150417
LOC_Os01g16870 9633946 – 9628308 2718 905 100638.84 9.32 21
8 OsAGO4b 12004.m05971
12004.m35113
LOC_Os04g06770 3547911 – 3542867 2739 912 101739.93 9.2 21
9 OsAGO14 12007.m05358 LOC_Os07g09020 4710731 – 4701446 3162 1053 113909.58 10 21
10 OsMEL1 12003.m10765 LOC_Os03g58600 33319166 – 33310479 3180 1059 117034.04 9.58 21
11 OsAGO13 12003.m10673 LOC_Os03g57560 32753781 – 32760315 3186 1061 121023.51 9.46 21
12 OsAGO16 12007.m06064 LOC_Os07g16224 9466401 – 9459149 1095 364 40509.71 8.07 10
13 SHL4 12003.m08604 LOC_Os03g33650 19198976 – 19203042 3168 1055 118110.77 9.76 2
14 OsPNH1 12006.m08501 LOC_Os06g39640 23539785 – 23545931 2925 974 107717.15 9.64 21
15 OsAGO17 12002.m06078 LOC_Os02g07310 3754861 – 3748703 2634 877 98923 8.64 21
16 OsAGO12 12003.m09795 LOC_Os03g47820 27110631 – 27102684 2934 977 107073.06 9.83 21
17 OsAGO11 12003.m09796 LOC_Os03g47830 27127103 – 27114562 2688 895 99845.06 8.94 20
18 OsAGO18 12007.m07156 LOC_Os07g28850 16891936 – 16898240 3270 1089 118034.34 9.57 20
19 OsAGO15 12001.m08281 LOC_Os01g16850 9622035-9610432 6711 2237 246763.92 8.51 19
RNA-DEPENDENT RNA POLYMERASES
1 SHL2 12001.m09741 LOC_Os01g34350 19272378 – 19267489 3657 1219 136533.79 7.11 1
2 OsRDR2 12004.m08905 LOC_Os04g39160 23065706 – 23070916 3411 1137 126924.77 7.56 3
3 OsRDR4 12001.m07636
12001.m97449
12001.m97489
LOC_Os01g10140 5321158 – 5304556 3621 1207 135030.19 7.1 18
4 OsRDR1 12002.m10067 LOC_Os02g50330 30727018 – 30730508 2223 741 84265 6.88 2
5 OsRDR3 12001.m07635 LOC_Os01g10130 5289905 – 5285242 1311 437 50679.98 6.57 6
  1. Values in Bold: Molecular weight and pI calculated by Gene Runner as it was not available in TIGR bp, base pairs; a.a., amino acid; Da, Dalton