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Table 1 Daphnia pulex gustatory receptor (Gr) gene model support.

From: The chemoreceptor genes of the waterflea Daphnia pulex: many Grs but no Ors

DpuGr Location JGI V1.1 gene model Protein ID New Protein ID Comments
1 scaffold_4:272236-273762 fgenesh1_pg.C_scaffold_4000034 346811 NA Same
2 scaffold_4:278009-279502 NCBI_GNO_0400033 311261 346819 truncated 1st exon
3 scaffold_4:279988-281469 NCBI_GNO_0400034 311262 346813 missing final exon
4 scaffold_4:341660-343135 fgenesh1_pg.C_scaffold_4000053 95937 346911 truncated 1st exon
5 scaffold_4:339828-341493 PASA_GEN_0400197 305579 NA Same
6 scaffold_4:2188983-2190473 NCBI_GNO_0400391 311617 NA Same
7 scaffold_4:2190837-2192326 NCBI_GNO_0400392 311618 346837 4th exon too long & missing 5th exon
8 scaffold_4:2192733-2194232 NCBI_GNO_0400393 311619 NA Same
9 scaffold_4:2194646-2196117 NCBI_GNO_0400394 311620 346838 match on all exons but NCBI model has extras at 3' end
10 scaffold_4:2634693-2636319 NCBI_GNO_0400515 311740 346840 truncated 1st exon missing last exon
11 scaffold_145:138652-140036 fgenesh1_pg.C_scaffold_145000046 115102 346841 missing 1st intron & last (5th) exon
12 scaffold_87:435725-437154 NCBI_GNO_8700117 327171 NA Same
13 scaffold_87:437579-438974 SNAP_00023793 255735 346842 1st exon and truncated 2nd exon
14 scaffold_87:441383-442931 fgenesh1_pg.C_scaffold_87000145 111713 346843 4th intron too long
15 scaffold_40:105929-107556 NCBI_GNO_4000025 321270 346844 last (5th) exon missing
16N scaffold_40:103864-105444 NCBI_GNO_4000024 321269 NA Same
17 scaffold_87:211272-212862 NCBI_GNO_8700061 327115 346847 5' end missing 9 bp
18 scaffold_87:213286-214940 NCBI_GNO_8700062 327116 346848 5' end missing 9 bp
19 scaffold_87:196838-198317 NCBI_GNO_8700054 327108 346849 5th exon too long
20 scaffold_87:193344-194997 NCBI_GNO_8700053 327107 346850 truncated 1st exon & missing 3rd exon
21 scaffold_87:191113-192511 NCBI_GNO_8700052 327106 NA Same
22 scaffold_87:187203-188649 SNAP_00023720 255662 NA Same
23FIX scaffold_87:185158-186582 NCBI_GNO_8700050 327104 442586 missing last 3 exons
24 scaffold_87:30125-31504 NCBI_GNO_8700006 327060 NA Same
25 scaffold_87:31824-33484 SNAP_00023664 255606 346855 truncated 1st exon & missing 5th exon
26P scaffold_328:49769-50798 NCBI_GNO_32800005 334296 442583 missing last 2 exons of our model
27 scaffold_4:2218191-2219707 SNAP_00002848 234790 346857 5th exon mismatch
28 scaffold_4:2216102-2217599 SNAP_00002847 234789 346858 missing 1st exon
29 scaffold_4:2213168-2214628 NCBI_GNO_0400395 311621 346859 5th intron is longer
30 scaffold_51:492193-493689 NCBI_GNO_5100060 323020 346860 extra intron within 2nd exon
31 scaffold_86:355128-356818 SNAP_00023611 255553 346861 missing 4th exon & truncated 6th exon
32 scaffold_66:753423-755119 NCBI_GNO_6600115 325025 346862 missing last 3 exons
33 scaffold_117:358469-360263 fgenesh1_pg.C_scaffold_117000028 113818 346863 truncated 1st exon
34FIX scaffold_29:299592-300898 no hit NA 442578  
35FIX scaffold_123:44710-46019 NCBI_GNO_12300006 329587 442580 truncated 1st exon & missing 6th exon
36 scaffold_123:46645-48216 NCBI_GNO_12300007 329588 346866 truncated 1st exon
37 scaffold_187:187229-188772 NCBI_GNO_18700047 332335 346867 truncated 1st & 2nd exons
38 scaffold_187:180574-182181 NCBI_GNO_18700046 332334 346875 1st exon missing & longer 4th exon
39 scaffold_187:182801-184413 PASA_GEN_18700024 302748 346876 truncated 1st exon and 6th exon too long
40P scaffold_187:184972-186472 fgenesh1_pg.C_scaffold_187000047 NA NA  
41 scaffold_187:177577-179164 no hit NA 346878  
42 scaffold_4:2636875-2638477 NCBI_GNO_0400516 311741 346879 truncated 1st exon & 3 exons instead of 2
43 scaffold_87:433963-435377 NCBI_GNO_8700116 327170 NA same
44N scaffold_6:1830849-1832318 NCBI_GNO_0600407 312608 442555 JGI – 5' 1st exon missing
45 scaffold_6:1833035-1834297 NCBI_GNO_0600408 312609 346880 truncated 5' end
46 scaffold_8:1391176-1392681 fgenesh1_pg.C_scaffold_8000220 98040 NA same
47 scaffold_58:302684-304219 NCBI_GNO_5800046 323957 346882 1st & 2nd exons missing/3rd
48 scaffold_2:711166-709624 no hit NA NA exon truncated
49 scaffold_2:705282-706818 NCBI_GNO_0200131 310197 346895 partial, last 4 exons only
50 scaffold_2:702774-704369 NCBI_GNO_0200130 310196 346897 extra intron within 1st exon
51 scaffold_2:700887-702432 NCBI_GNO_0200129 310195 NA same
52N scaffold_2:399077-400562 NCBI_GNO_0200074 310142 442581 truncated 1st intron
53 scaffold_13:642296-644073 NCBI_GNO_1300117 315056 NA same
54 scaffold_138:252456-255386 SNAP_00028520 260462 346908 1st & 4th exon missing
55 scaffold_6:842460-843909 SNAP_00003790 235732 346901 4th exon missing & truncated 5th exon
56 scaffold_6:840584-842029 NCBI_GNO_0600186 312387 NA same
57 scaffold_4:2311538-2313083 NCBI_GNO_0400416 311642 346902 same
58 scaffold_24:135381-137169 NCBI_GNO_2400021 318197 NA same
  1. The location and protein ID plus the newly annotated protein ID for each gene model found in the Daphnia genome V1.1 is given, along with annotation comments. Genes in the first column followed by the letter P indicates Pseudogene, N indicates predicted models needed revision, and FIX indicates gene models that were not initially predicted and were manually curated.