Table 1

List of predicted genes from the 340,415-bp contig of R. rugosa orthologous to the Rdr1 locus of R. multiflora
No. Position on the contig (bp) Similarity as revealed by BLASTp (similar to GenBank accession number) E-value
1 6564-11898 TIR-NBS-LRR (AEE43932.1) 0.0
2 12848-11923 None -
3 12986-18853 Retrotransposon protein, Ty1-copia (ABF96803.1) 0.0
4 20854-26772 Retrotransposon protein, Ty1-copia (ABA98286.2) 0.0
5 28978-37792 TIR-NBS-LRR (AEE43932.1) 0.0
6 41656-37934 None -
7 45166-56998 Neuroblastoma-amplified sequence (XP_003602296.1) 0.0
8 60939-57122 Major facilitator superfamily domain (XP_003526731.1) 0.0
9 62610-61549 None -
10 62646-64390 rhodanese-like domain-containing protein (NP_567785.1) 1e-102
11 68835-64533 Vacuolar protein sorting-associated (XP_002274585.1) 0.0
12 69119-71844 Transcription factor B3 (ABN06173.1) 7e-15
13 71912-76631 Gag-pol polyprotein (BAK64102.1) 0.0
14 76951-79409 Transcription factor B3 (XP_003517920.1) 2e-19
15 85078-79980 TIR-NBS-LRR (AEE43932.1) 0.0
16 88492-94115 None -
17 94486-100495 None -
18 104305-100835 Mutator-like transposase (BAB10320.1) 1e-102
19 109120-104792 TIR-NBS-LRR (AEE43932.1) 0.0
20 109935-111490 None -
21 116498-111549 Gag-pol polyprotein (AAO73527.1) 2e-55
22 121170-117613 Shikimate dehydrogenase (EEF45470) 6e-12
23 127179-122701 TIR-NBS-LRR (AEE43932.1) 0.0
24 127707-139272 Non-LTR retroelement reverse transcriptase (AAG13524) 0.0
25 140854-139893 None -
26 143524-147207 Transcription factor B3 (XP_003535137.1) 2e-08
27 148930-147755 Phospholipase C (ACF93733.1) 6e-12
28 153630-150256 None -
29 161422-157057 TIR-NBS-LRR (AEE43932.1) 0.0
30 166328-163477 LRR (AEE43932.2) 4e-85
31 169607-170212 None -
32 176508-171812 TIR-NBS-LRR (AEE43932.1) 0.0
33 176830-179287 Transcription factor B3 (XP_003517920.1) 2e-21
34 179594-182362 Transcription factor B3 (XP_003517920.1) 3e-18
35 188265-182622 TIR-NBS-LRR (AEE43932.1) 0.0
36 198290-192614 TIR-NBS-LRR (AEE43932.1) 0.0
37 199678-207935 None -
38 211387-209495 None -
39 217944-212928 TIR-NBS-LRR (AEE43932.1) 0.0
40 230339-218090 Retrotransposon protein, Ty1-copia (ABF96803.1) 0.0
41 232191-238449 Non-LTR retroelement reverse transcriptase (AAB82639) 0.0
42 239180-238929 None -
43 239877-240955 None -
44 245771-241137 TIR-NBS-LRR (AEE43932.1) 0.0
45 250194-245924 Copia-type polyprotein (AAG51247.1) 0.0
46 250788-253960 None -
47 254886-254010 None -
48 258861-257151 ATP binding protein (XP_002515676.1) 0.0
49 265170-261078 AAA domain-containing protein (XP_003544721.1) 0.0
50 266721-274192 Yellow stripe-like protein (XP_003602315.1) 0.0
51 278098-274211 GTPase-activating protein (XP_003526739.1) 0.0
52 283722-281796 6-phosphogluconolactonase (XP_002518214.1) 5e-135
53 285094-286783 Ubiquitin (XP_002530306.1) 4e-88
54 288959-286931 Aldo-keto reductase (XP_003602320.1) 0.0
55 290639-289124 Homeobox leucine zipper protein (AAD38144.1) 1e-79
56 298129-297002 None -
57 298247-299808 Hypothetical protein (XP_003602325.1) 5e-97
58 309056-299987 TOPLESS-RELATED protein (XP_002275116.1) 4e-105
59 309339-311499 None -
60 318648-317787 None -
61 325145-319916 Serine/threonine protein kinase (NP_001234146.1) 0.0
62 326294-328526 None -
63 331756-329732 UDP-N-acetylglucosamine transporter (XP_003531350.1) 5e-48
64 335561-332977 F-box protein (XP_003610959.1) 2e-08
65 336756-340415 Unnamed protein product (CBI23069.3) 0.0

Gene predictions were made using FGENESH and BLAST.

Terefe-Ayana et al.

Terefe-Ayana et al. BMC Genomics 2012 13:409   doi:10.1186/1471-2164-13-409

Open Data