FN2944-S Chr1 15865031 15865031 0 0 Insertion 7 upstream_gene_variant HET FN2944-S Chr1 2335893 2335894 0 0 Deletion 1 upstream_gene_variant HET FN2944-S Chr1 23475349 23475349 0 0 Insertion 1 downstream_gene_variant HET FN2944-S Chr1 25816251 25816252 0 0 Deletion 1 upstream_gene_variant HET FN2944-S Chr1 28275230 28275230 0 0 Insertion 4 upstream_gene_variant HET FN2944-S Chr1 5780664 5780666 0 0 Deletion 2 INTERGENIC HET FN2944-S Chr1 7916067 A-T 0 0 Single Base Substitution 0 INTERGENIC HET FN2944-S Chr1 8104621 T-A 0 0 Single Base Substitution 0 INTERGENIC HET FN2944-S Chr1 9031972 9031972 0 0 Insertion 1 upstream_gene_variant HET FN2944-S Chr10 12608875 T-C 0 0 Single Base Substitution 0 NON_SYNONYMOUS_CODING HET LOC_Os10g24560 retrotransposon protein, putative, Ty3-gypsy subclass, expressed FN2944-S Chr10 1301765 1301765 0 0 Insertion 4 downstream_gene_variant HET FN2944-S Chr10 1416699 1416699 0 0 Insertion 1 upstream_gene_variant HET FN2944-S Chr10 18349758 18349759 0 0 Deletion 1 INTRON HET FN2944-S Chr10 20238493 20238496 0 0 Deletion 3 disruptive_inframe_deletion HET LOC_Os10g37810 transposon protein, putative, CACTA, En/Spm sub-class, expressed FN2944-S Chr10 20809401 20809402 0 0 Deletion 1 INTERGENIC HET FN2944-S Chr10 20984552 20984562 0 0 Deletion 10 downstream_gene_variant HET FN2944-S Chr11 2728100 G-A 0 0 Single Base Substitution 0 INTERGENIC HOMO FN2944-S Chr11 3211068 3211068 0 0 Insertion 3 downstream_gene_variant HET FN2944-S Chr11 6047809 6047810 0 0 Deletion 1 upstream_gene_variant HET FN2944-S Chr11 6353512 A-C 0 0 Single Base Substitution 0 INTERGENIC HET FN2944-S Chr12 12664634 G-A 0 0 Single Base Substitution 0 INTERGENIC HOMO FN2944-S Chr12 14169448 C-T 0 0 Single Base Substitution 0 STOP_GAINED HOMO LOC_Os12g24710 retrotransposon protein, putative, unclassified, expressed FN2944-S Chr12 15356722 G-T 0 0 Single Base Substitution 0 NON_SYNONYMOUS_CODING HET LOC_Os12g26310 retrotransposon protein, putative, unclassified, expressed FN2944-S Chr12 1925315 C-T 0 0 Single Base Substitution 0 INTRON HOMO FN2944-S Chr12 20389415 20389416 0 0 Deletion 1 downstream_gene_variant HET FN2944-S Chr12 22456048 22456048 0 0 Insertion 3 upstream_gene_variant HET FN2944-S Chr12 3897800 G-A 0 0 Single Base Substitution 0 NON_SYNONYMOUS_CODING HET LOC_Os12g07750 retrotransposon protein, putative, Ty3-gypsy subclass, expressed FN2944-S Chr12 4856637 4856638 0 0 Deletion 1 upstream_gene_variant HET FN2944-S Chr2 10851132 10851133 0 0 Deletion 1 upstream_gene_variant HET FN2944-S Chr2 11000354 C-T 0 0 Single Base Substitution 0 NON_SYNONYMOUS_CODING HET LOC_Os02g18850 OsPOP5 - Putative Prolyl Oligopeptidase homologue, expressed FN2944-S Chr2 14436034 G-A 0 0 Single Base Substitution 0 INTERGENIC HET FN2944-S Chr2 190421 C-T 0 0 Single Base Substitution 0 INTRON HET FN2944-S Chr2 20737756 T-C 0 0 Single Base Substitution 0 INTERGENIC HET FN2944-S Chr2 25910004 G-A 0 0 Single Base Substitution 0 UTR_3_PRIME HET FN2944-S Chr2 28355994 28355996 0 0 Deletion 2 INTRON HOMO FN2944-S Chr2 29378067 T-C 0 0 Single Base Substitution 0 INTRON HOMO FN2944-S Chr2 9205518 9205518 0 0 Insertion 2 downstream_gene_variant HET FN2944-S Chr3 12267469 12267486 0 0 Deletion 17 INTERGENIC HOMO FN2944-S Chr3 12340397 12340399 0 0 Deletion 2 UTR_3_PRIME HOMO FN2944-S Chr3 19192734 G-A 0 0 Single Base Substitution 0 INTERGENIC HOMO FN2944-S Chr3 21832661 C-G 0 0 Single Base Substitution 0 INTERGENIC HET FN2944-S Chr3 30018014 30018014 0 0 Insertion 39 upstream_gene_variant HET FN2944-S Chr4 11333295 T-C 0 0 Single Base Substitution 0 INTERGENIC HET FN2944-S Chr4 16556872 16556872 0 0 Insertion 48 downstream_gene_variant HET FN2944-S Chr4 19731904 19731904 0 0 Insertion 5 frameshift_variant HET LOC_Os04g32730 retrotransposon protein, putative, unclassified, expressed FN2944-S Chr4 23013617 23013617 0 0 Insertion 1 intergenic_region HET FN2944-S Chr4 23590496 T-C 0 0 Single Base Substitution 0 INTERGENIC HET FN2944-S Chr4 25681001 25706000 0 0 Deletion 24999 LOC_Os04g43420 PTAC5, putative, expressed FN2944-S Chr4 25681001 25706000 0 0 Deletion 24999 LOC_Os04g43430 pentatricopeptide, putative, expressed FN2944-S Chr4 26481779 26636639 0 0 Inversion 154860 FN2944-S Chr4 26532270 26636634 0 0 Inversion 104364 FN2944-S Chr4 4805560 T-A 0 0 Single Base Substitution 0 INTERGENIC HET FN2944-S Chr4 5338246 6073640 0 0 Inversion 735394 LOC_Os04g11170 retrotransposon protein, putative, unclassified, expressed FN2944-S Chr4 5340001 5370000 0 0 Deletion 29999 LOC_Os04g09940 retrotransposon protein, putative, unclassified FN2944-S Chr4 5340001 5370000 0 0 Deletion 29999 LOC_Os04g09950 hypothetical protein FN2944-S Chr4 5340001 5370000 0 0 Deletion 29999 LOC_Os04g09960 expressed protein FN2944-S Chr4 5340001 5370000 0 0 Deletion 29999 LOC_Os04g09980 transposon protein, putative, unclassified, expressed FN2944-S Chr4 5340001 5370000 0 0 Deletion 29999 LOC_Os04g10170 hypothetical protein FN2944-S Chr4 5944437 5944437 0 0 Insertion 16 upstream_gene_variant HET FN2944-S Chr4 6696262 6696263 0 0 Deletion 1 frameshift_variant HET LOC_Os04g12150 expressed protein FN2944-S Chr5 12293134 12293134 0 0 Insertion 1 upstream_gene_variant HET FN2944-S Chr5 15242768 15242769 0 0 Deletion 1 upstream_gene_variant HET FN2944-S Chr5 20603985 20604001 0 0 Deletion 16 upstream_gene_variant HET FN2944-S Chr5 27597779 C-G 0 0 Single Base Substitution 0 NON_SYNONYMOUS_CODING HET LOC_Os05g48140 expressed protein FN2944-S Chr5 4794471 C-T 0 0 Single Base Substitution 0 INTERGENIC HET FN2944-S Chr5 6483681 G-A 0 0 Single Base Substitution 0 INTERGENIC HET FN2944-S Chr6 10131089 C-A 0 0 Single Base Substitution 0 SYNONYMOUS_CODING HET FN2944-S Chr6 21146951 G-C 0 0 Single Base Substitution 0 NON_SYNONYMOUS_CODING HET LOC_Os06g36140 retrotransposon protein, putative, unclassified, expressed FN2944-S Chr6 24124976 T-A 0 0 Single Base Substitution 0 INTERGENIC HET FN2944-S Chr6 24180715 C-T 0 0 Single Base Substitution 0 SYNONYMOUS_CODING HOMO FN2944-S Chr6 3902454 A-G 0 0 Single Base Substitution 0 INTRON HET FN2944-S Chr6 3902465 T-A 0 0 Single Base Substitution 0 INTRON HET FN2944-S Chr6 9222001 9348000 0 0 Deletion 125999 LOC_Os06g16210 expressed protein FN2944-S Chr6 9222001 9348000 0 0 Deletion 125999 LOC_Os06g16220 transposon protein, putative, unclassified, expressed FN2944-S Chr6 9222001 9348000 0 0 Deletion 125999 LOC_Os06g16230 transposon protein, putative, unclassified, expressed FN2944-S Chr6 9222001 9348000 0 0 Deletion 125999 LOC_Os06g16240 expressed protein FN2944-S Chr6 9222001 9348000 0 0 Deletion 125999 LOC_Os06g16250 expressed protein FN2944-S Chr6 9222001 9348000 0 0 Deletion 125999 LOC_Os06g16260 OsSigP5 - Putative Type I Signal Peptidase homologue; employs a putative Ser/His catalytic dyad, expressed FN2944-S Chr6 9222001 9348000 0 0 Deletion 125999 LOC_Os06g16270 heat shock factor binding protein 2, putative, expressed FN2944-S Chr6 9222001 9348000 0 0 Deletion 125999 LOC_Os06g16280 expressed protein FN2944-S Chr6 9222001 9348000 0 0 Deletion 125999 LOC_Os06g16290 ribosomal protein L7Ae, putative, expressed FN2944-S Chr6 9222001 9348000 0 0 Deletion 125999 LOC_Os06g16300 BRASSINOSTEROID INSENSITIVE 1-associated receptor kinase 1 precursor, putative, expressed FN2944-S Chr6 9222001 9348000 0 0 Deletion 125999 LOC_Os06g16310 retrotransposon protein, putative, unclassified, expressed FN2944-S Chr6 9222001 9348000 0 0 Deletion 125999 LOC_Os06g16320 retrotransposon protein, putative, unclassified, expressed FN2944-S Chr6 9222001 9348000 0 0 Deletion 125999 LOC_Os06g16330 BRASSINOSTEROID INSENSITIVE 1-associated receptor kinase 1 precursor, putative, expressed FN2944-S Chr6 9222001 9348000 0 0 Deletion 125999 LOC_Os06g16340 expressed protein FN2944-S Chr6 9222001 9348000 0 0 Deletion 125999 LOC_Os06g16350 peroxidase precursor, putative, expressed FN2944-S Chr6 9222001 9348000 0 0 Deletion 125999 LOC_Os06g16360 expressed protein FN2944-S Chr6 9222001 9348000 0 0 Deletion 125999 LOC_Os06g16370 CCT/B-box zinc finger protein, putative, expressed FN2944-S Chr6 9547992 9548001 0 0 Deletion 9 upstream_gene_variant HET FN2944-S Chr6 9601040 9601053 0 0 Deletion 13 downstream_gene_variant HET FN2944-S Chr6 9753636 9753636 0 0 Insertion 1 downstream_gene_variant HET FN2944-S Chr6 9771001 9786000 0 0 Deletion 14999 LOC_Os06g16919 expressed protein FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g16930 retrotransposon protein, putative, Ty3-gypsy subclass FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g16940 retrotransposon protein, putative, Ty1-copia subclass, expressed FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g16950 expressed protein FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g16960 O-methyltransferase, putative, expressed FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g16970 hypothetical protein FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g16980 DNA topoisomerase I family protein, expressed FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g16990 expressed protein FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g17000 BURP domain containing protein, expressed FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g17020 anthocyanin 3-O-beta-glucosyltransferase, putative, expressed FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g17030 transposon protein, putative, unclassified, expressed FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g17040 retrotransposon protein, putative, unclassified, expressed FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g17050 expressed protein FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g17060 retrotransposon protein, putative, Ty1-copia subclass FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g17070 retrotransposon protein, putative, Ty1-copia subclass, expressed FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g17080 retrotransposon protein, putative, unclassified, expressed FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g17090 UDP-glycosyltransferase, putative, expressed FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g17100 retrotransposon protein, putative, unclassified, expressed FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g17110 glycosyltransferase, putative, expressed FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g17120 UDP-glucoronosyl and UDP-glucosyl transferase domain containing protein, expressed FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g17130 expressed protein FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g17140 UDP-glucoronosyl and UDP-glucosyl transferase domain containing protein, expressed FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g17150 retrotransposon protein, putative, unclassified, expressed FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g17160 transposon protein, putative, unclassified, expressed FN2944-S Chr6 9802001 9956000 0 0 Deletion 153999 LOC_Os06g17170 retrotransposon protein, putative, unclassified FN2944-S Chr6 9987001 10095000 0 0 Deletion 107999 LOC_Os06g17250 anthocyanidin 3-O-glucosyltransferase, putative, expressed FN2944-S Chr6 9987001 10095000 0 0 Deletion 107999 LOC_Os06g17260 UDP-glucoronosyl and UDP-glucosyl transferase domain containing protein, expressed FN2944-S Chr6 9987001 10095000 0 0 Deletion 107999 LOC_Os06g17270 expressed protein FN2944-S Chr6 9987001 10095000 0 0 Deletion 107999 LOC_Os06g17280 PHD-finger family protein, expressed FN2944-S Chr6 9987001 10095000 0 0 Deletion 107999 LOC_Os06g17285 protein kinase, putative, expressed FN2944-S Chr6 9987001 10095000 0 0 Deletion 107999 LOC_Os06g17290 phosphatidylinositol 3- and 4-kinase family protein, putative, expressed FN2944-S Chr6 9987001 10095000 0 0 Deletion 107999 LOC_Os06g17300 hypothetical protein FN2944-S Chr6 9987001 10095000 0 0 Deletion 107999 LOC_Os06g17320 transposon protein, putative, CACTA, En/Spm sub-class FN2944-S Chr6 9987001 10095000 0 0 Deletion 107999 LOC_Os06g17330 transposon protein, putative, CACTA, En/Spm sub-class, expressed FN2944-S Chr6 9987001 10095000 0 0 Deletion 107999 LOC_Os06g17340 transposon protein, putative, CACTA, En/Spm sub-class, expressed FN2944-S Chr6 9987001 10095000 0 0 Deletion 107999 LOC_Os06g17350 retrotransposon protein, putative, unclassified, expressed FN2944-S Chr6 9987001 10095000 0 0 Deletion 107999 LOC_Os06g17360 retrotransposon protein, putative, Ty3-gypsy subclass FN2944-S Chr6 9987001 10095000 0 0 Deletion 107999 LOC_Os06g17370 retrotransposon protein, putative, Ty3-gypsy subclass FN2944-S Chr6 9987001 10095000 0 0 Deletion 107999 LOC_Os06g17380 retrotransposon protein, putative, unclassified, expressed FN2944-S Chr6 9987001 10095000 0 0 Deletion 107999 LOC_Os06g17390 auxin-independent growth promoter protein, putative, expressed FN2944-S Chr6 9987001 10095000 0 0 Deletion 107999 LOC_Os06g17920 NBS-LRR disease resistance protein, putative, expressed FN2944-S Chr7 10633766 A-T 0 0 Single Base Substitution 0 INTERGENIC HET FN2944-S Chr7 13176878 13176882 0 0 Deletion 4 INTERGENIC HET FN2944-S Chr7 18022540 C-G 0 0 Single Base Substitution 0 INTERGENIC HET FN2944-S Chr7 21545593 21545599 0 0 Deletion 6 intron_variant HET FN2944-S Chr7 22710315 G-A 0 0 Single Base Substitution 0 INTERGENIC HET FN2944-S Chr7 23109522 23109526 0 0 Deletion 4 INTERGENIC HET FN2944-S Chr7 24289012 24289012 0 0 Insertion 2 INTERGENIC HET FN2944-S Chr7 8338880 8338880 0 0 Insertion 2 INTERGENIC HET FN2944-S Chr8 15544411 15544416 0 0 Deletion 5 INTERGENIC HET FN2944-S Chr8 18275080 18275083 0 0 Deletion 3 upstream_gene_variant HET FN2944-S Chr8 1840332 Chr3 30508219 0 Translocation 0 FN2944-S Chr8 1932671 1932672 0 0 Deletion 1 intergenic_region HET FN2944-S Chr8 2824391 2824391 0 0 Insertion 1 frameshift_variant HET LOC_Os08g05360 transposon protein, putative, unclassified, expressed FN2944-S Chr8 5280456 Chr4 5419644 0 Translocation 0 LOC_Os04g10050 expressed protein FN2944-S Chr8 5280458 Chr4 5419893 0 Translocation 0 LOC_Os04g10050 expressed protein FN2944-S Chr8 6625934 6625934 0 0 Insertion 1 downstream_gene_variant HET FN2944-S Chr8 7516616 T-C 0 0 Single Base Substitution 0 INTERGENIC HOMO FN2944-S Chr9 1031110 1031111 0 0 Deletion 1 INTERGENIC HET FN2944-S Chr9 18156689 18156690 0 0 Deletion 1 FRAME_SHIFT HET LOC_Os09g29850 expressed protein FN2944-S Chr9 18804216 C-T 0 0 Single Base Substitution 0 INTERGENIC HET FN2944-S Chr9 4874595 4874597 0 0 Deletion 2 INTERGENIC HET FN2944-S Chr9 5716599 5716609 0 0 Deletion 10 upstream_gene_variant HET