Rule | cgd | dictybase | ecocyc | fb | genedb_lmajor | genedb_pfalciparum | genedb_tbrucei | goa_chicken | goa_chicken_complex | goa_chicken_isoform | goa_chicken_rna | goa_cow | goa_cow_complex | goa_cow_isoform | goa_cow_rna | goa_dog | goa_dog_complex | goa_dog_isoform | goa_dog_rna | goa_human | goa_human_complex | goa_human_isoform | goa_human_rna | goa_pig | goa_pig_complex | goa_pig_isoform | goa_pig_rna | japonicusdb | mgi | paint_cgd | paint_dictybase | paint_ecocyc | paint_fb | paint_goa_chicken | paint_goa_human | paint_mgi | paint_other | paint_pombase | paint_rgd | paint_sgd | paint_tair | paint_wb | paint_xenbase | paint_zfin | pombase | pseudocap | reactome | rgd | sgd | sgn | tair | wb | xenbase | zfin |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
GAF lines are parsed according to GAF 2.2 specifications: gorule-0000001 |
0 | 1535 | 0 | 2087 | 4 | 0 | 18 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 57 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1739 | 0 | 6 | 1288 | 0 | 5 | 0 | 8154 | 1 |
No 'NOT' annotations to binding ; GO:0005488 or 'protein binding ; GO:0005515': gorule-0000002 |
0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 |
IEA, ISS, ISO, ISM, ISA, IBA, RCA annotations ae not allowed for direct annotations to to 'protein binding ; GO:0005515 or GO:0005488 binding'': gorule-0000005 |
0 | 0 | 0 | 2 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 23 | 0 | 2 | 12 | 1 | 0 | 0 | 2 | 12 | 0 | 2 | 243 | 3 | 0 | 1 | 32 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 4 | 0 |
IEP and HEP usage is restricted to terms from the Biological Process ontology, except when assigned by GOC: gorule-0000006 |
0 | 0 | 23 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 17 | 0 | 5 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
IPI should not be used with GO:0003824 catalytic activity or descendents: gorule-0000007 |
0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 0 |
No annotations should be made to uninformative high level terms: gorule-0000008 |
10000 | 201 | 602 | 883 | 94 | 342 | 473 | 955 | 0 | 1320 | 0 | 1510 | 0 | 750 | 0 | 777 | 0 | 1093 | 0 | 5637 | 97 | 1715 | 115 | 947 | 0 | 1202 | 0 | 43 | 7337 | 288 | 488 | 84 | 817 | 1552 | 1856 | 1946 | 10000 | 302 | 1884 | 326 | 1153 | 1009 | 1614 | 2344 | 40 | 74 | 111 | 92 | 794 | 5 | 2291 | 2883 | 1649 | 2039 |
ND evidence code should be to root nodes only, and no terms other than root nodes can have the evidence code ND: gorule-0000011 |
0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 3 | 0 | 0 | 0 | 3 | 0 | 0 | 0 | 4 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
Taxon-appropriate annotation check: gorule-0000013 |
111 | 37 | 11 | 163 | 0 | 1 | 0 | 91 | 0 | 13 | 0 | 10 | 0 | 8 | 0 | 10 | 0 | 5 | 0 | 23 | 0 | 4 | 0 | 15 | 0 | 4 | 0 | 17 | 8 | 30 | 74 | 25 | 31 | 17 | 2 | 2 | 5827 | 43 | 2 | 27 | 80 | 25 | 15 | 10 | 20 | 2 | 1053 | 3 | 19 | 0 | 41 | 91 | 173 | 35 |
Dual species taxon check: gorule-0000015 |
0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 36 | 0 | 2 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
With/From: IC annotations require a With/From GO ID: gorule-0000016 |
0 | 0 | 36 | 6 | 4 | 3 | 16 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 158 | 0 | 4 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 6 | 1 | 0 | 0 | 0 |
IDA annotations must not have a With/From entry: gorule-0000017 |
0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 5 | 0 | 5 | 0 | 0 | 0 |
IPI annotations require a With/From entry: gorule-0000018 |
0 | 0 | 457 | 0 | 0 | 2 | 27 | 1 | 0 | 0 | 0 | 3 | 3 | 0 | 0 | 0 | 0 | 0 | 0 | 1430 | 229 | 16 | 0 | 2 | 0 | 0 | 0 | 0 | 118 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 4 | 0 | 0 | 0 | 116 | 0 | 25 | 0 | 8 | 6 |
Automatic repair of annotations to merged or obsoleted terms: gorule-0000020 |
6932 | 23 | 56 | 244 | 279 | 687 | 967 | 119 | 0 | 164 | 0 | 208 | 0 | 98 | 0 | 206 | 0 | 161 | 0 | 803 | 171 | 312 | 10 | 221 | 0 | 166 | 0 | 8 | 110 | 37 | 52 | 3 | 94 | 72 | 79 | 78 | 7098 | 36 | 75 | 41 | 106 | 52 | 76 | 83 | 3 | 236 | 209 | 266 | 105 | 115 | 411 | 515 | 194 | 47 |
Each identifier in GAF is valid: gorule-0000027 |
0 | 0 | 154 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 218 | 0 | 5 | 0 | 0 | 0 | 0 | 0 | 1369 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1444 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 10000 | 30 |
GO aspect should match the term's namespace; otherwise it is repaired to the appropriate aspect: gorule-0000028 |
0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
IEAs should be less than one year old.: gorule-0000029 |
0 | 0 | 0 | 0 | 4 | 6480 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 121 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 14 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
Obsolete GO_REFs are not allowed: gorule-0000030 |
0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
IBA annotations should ONLY be assigned_by GO_Central and have GO_REF:0000033 as a reference: gorule-0000037 |
0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
Protein complexes can not be annotated to GO:0032991 (protein-containing complex) or its descendants: gorule-0000039 |
0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 3 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
Qualifier: IKR evidence code requires a NOT qualifier: gorule-0000042 |
0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
Check for valid combination of evidence code and GO_REF: gorule-0000043 |
0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
The ‘with’ field (GAF column 8) must be the same as the gene product (GAF column 2) when annotating to ‘self-binding’ terms.: gorule-0000046 |
84 | 20 | 401 | 104 | 4 | 6 | 9 | 316 | 0 | 118 | 0 | 527 | 0 | 188 | 0 | 601 | 0 | 191 | 0 | 794 | 0 | 247 | 0 | 679 | 0 | 201 | 0 | 0 | 1149 | 1 | 1 | 0 | 2 | 9 | 17 | 24 | 378 | 1 | 20 | 1 | 1 | 4 | 14 | 12 | 0 | 0 | 0 | 1460 | 6 | 0 | 213 | 69 | 162 | 153 |
Annotations to ISS, ISA and ISO should not be self-referential: gorule-0000050 |
0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
References should have only one ID per ID space: gorule-0000055 |
0 | 0 | 0 | 0 | 65 | 76 | 53 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 108 | 0 | 0 | 0 | 0 | 0 | 0 |
Object extensions should conform to the extensions-patterns.yaml file in metadata: gorule-0000058 |
0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
GAF Version 2.0 and 2.1 are converted into GAF Version 2.2: gorule-0000059 |
10000 | 0 | 0 | 0 | 9941 | 10000 | 10000 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 3726 | 0 | 0 | 0 | 1458 | 0 | 0 | 0 | 0 |
Allowed gene product to term relations (gp2term): gorule-0000061 |
9236 | 4639 | 955 | 21 | 32 | 167 | 445 | 29 | 3 | 1 | 0 | 97 | 6 | 1 | 0 | 7 | 0 | 0 | 0 | 3370 | 175 | 42 | 1 | 22 | 0 | 0 | 0 | 0 | 7509 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 6 | 0 | 3592 | 78 | 5 | 1137 | 170 | 126 | 2985 |
Annotations using ISS/ISA/ISO evidence should refer to a gene product (in the 'with' column): gorule-0000063 |
1443 | 97 | 28 | 999 | 104 | 0 | 386 | 1 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 12 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 39 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 972 | 0 | 12 | 503 | 94 | 5634 | 198 | 0 | 15 |
TreeGrafter IEAs should be filtered for GO reference species: gorule-0000064 |
0 | 5493 | 5260 | 0 | 0 | 0 | 0 | 10000 | 0 | 10000 | 0 | 8759 | 0 | 10000 | 0 | 10000 | 0 | 10000 | 0 | 3494 | 0 | 10000 | 0 | 10000 | 0 | 10000 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 10000 | 0 | 0 | 0 | 0 | 10000 | 0 |
Other |
0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |