GORULE violations assigned by sgd

Contents

gorule-0000013 Taxon-appropriate annotation check

gorule-0000020 Automatic repair of annotations to merged or obsoleted terms

gorule-0000046 The ‘with’ field (GAF column 8) must be the same as the gene product (GAF column 2) when annotating to ‘self-binding’ terms.

MESSAGES

gorule-0000013

Taxon-appropriate annotation check

• total: 9

messages

• WARNING - Violates GO Rule:GORULE:0000013: Taxon-appropriate annotation check--`SGD S000002163 MED2 acts_upstream_of_or_within GO:0090399 PMID:33045248 IMP P YDL005C protein taxon:559292 20210212 SGD `
• WARNING - Violates GO Rule:GORULE:0000013: Taxon-appropriate annotation check--`SGD S000002542 YCF1 enables GO:0015127 PMID:10790694 IMP F ATP-binding cassette glutathione S-conjugate transporter YCF1 YDR135C protein taxon:559292 20130807 SGD `
• WARNING - Violates GO Rule:GORULE:0000013: Taxon-appropriate annotation check--`SGD S000002542 YCF1 involved_in GO:0015723 PMID:10790694 IMP P ATP-binding cassette glutathione S-conjugate transporter YCF1 YDR135C protein taxon:559292 20130807 SGD `
• WARNING - Violates GO Rule:GORULE:0000013: Taxon-appropriate annotation check--`SGD S000002864 NHX1 involved_in GO:0061763 PMID:29212874 IMP P bifunctional K:H/Na:H antiporter NHX1 NHA2|VPL27|VPS44|YDR456W protein taxon:559292 20210727 SGD `
• WARNING - Violates GO Rule:GORULE:0000013: Taxon-appropriate annotation check--`SGD S000003615 PRY1 enables GO:0015485 PMID:27344972 IDA F sterol-binding protein YJL079C protein taxon:559292 20160811 SGD `
• WARNING - Violates GO Rule:GORULE:0000013: Taxon-appropriate annotation check--`SGD S000003938 BPT1 enables GO:0015127 PMID:10790694 IGI SGD:S000002542 F ATP-binding cassette bilirubin transporter BPT1 YLL015W protein taxon:559292 20130807 SGD `
• WARNING - Violates GO Rule:GORULE:0000013: Taxon-appropriate annotation check--`SGD S000003938 BPT1 enables GO:0015127 PMID:10790694 IMP F ATP-binding cassette bilirubin transporter BPT1 YLL015W protein taxon:559292 20130807 SGD `
• WARNING - Violates GO Rule:GORULE:0000013: Taxon-appropriate annotation check--`SGD S000003938 BPT1 involved_in GO:0015723 PMID:10790694 IGI SGD:S000002542 P ATP-binding cassette bilirubin transporter BPT1 YLL015W protein taxon:559292 20130807 SGD `
• WARNING - Violates GO Rule:GORULE:0000013: Taxon-appropriate annotation check--`SGD S000003938 BPT1 involved_in GO:0015723 PMID:10790694 IMP P ATP-binding cassette bilirubin transporter BPT1 YLL015W protein taxon:559292 20130807 SGD `

gorule-0000020

Automatic repair of annotations to merged or obsoleted terms

• total: 25

messages

• ERROR - Obsolete class with no replacement:Violates GORULE:0000020--`SGD S000001865 CAK1 enables GO:0019912 PMID:10373527 IDA F cyclin-dependent protein kinase-activating kinase CAK1 CIV1|YFL029C protein taxon:559292 20130807 SGD `
• ERROR - Obsolete class with no replacement:Violates GORULE:0000020--`SGD S000001865 CAK1 enables GO:0019912 PMID:10373527 IMP F cyclin-dependent protein kinase-activating kinase CAK1 CIV1|YFL029C protein taxon:559292 20130807 SGD `
• ERROR - Obsolete class with no replacement:Violates GORULE:0000020--`SGD S000001865 CAK1 enables GO:0019912 PMID:8752210 IDA F cyclin-dependent protein kinase-activating kinase CAK1 CIV1|YFL029C protein taxon:559292 20130807 SGD `
• ERROR - Obsolete class with no replacement:Violates GORULE:0000020--`SGD S000001865 CAK1 enables GO:0019912 PMID:8752210 IMP F cyclin-dependent protein kinase-activating kinase CAK1 CIV1|YFL029C protein taxon:559292 20130807 SGD `
• ERROR - Obsolete class with no replacement:Violates GORULE:0000020--`SGD S000001865 CAK1 enables GO:0019912 PMID:8752211 IDA F cyclin-dependent protein kinase-activating kinase CAK1 CIV1|YFL029C protein taxon:559292 20130807 SGD `
• ERROR - Obsolete class with no replacement:Violates GORULE:0000020--`SGD S000001865 CAK1 enables GO:0019912 PMID:8752211 IMP F cyclin-dependent protein kinase-activating kinase CAK1 CIV1|YFL029C protein taxon:559292 20130807 SGD `
• ERROR - Obsolete class with no replacement:Violates GORULE:0000020--`SGD S000001865 CAK1 enables GO:0019912 PMID:8781234 IDA F cyclin-dependent protein kinase-activating kinase CAK1 CIV1|YFL029C protein taxon:559292 20130807 SGD `
• ERROR - Obsolete class with no replacement:Violates GORULE:0000020--`SGD S000001865 CAK1 enables GO:0019912 PMID:8781234 IMP F cyclin-dependent protein kinase-activating kinase CAK1 CIV1|YFL029C protein taxon:559292 20130807 SGD `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`SGD S000000825 PRO3 involved_in GO:0006561 PMID:1508147 IMP P pyrroline-5-carboxylate reductase ORE2|YER023W protein taxon:559292 20130807 SGD `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`SGD S000000825 PRO3 involved_in GO:0006561 PMID:2824433 IMP P pyrroline-5-carboxylate reductase ORE2|YER023W protein taxon:559292 20130807 SGD `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`SGD S000002708 PRO1 involved_in GO:0006561 PMID:12513997 IDA P glutamate 5-kinase YDR300C protein taxon:559292 20130807 SGD `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`SGD S000005850 PRO2 involved_in GO:0006561 PMID:12513997 IDA P glutamate-5-semialdehyde dehydrogenase YOR323C protein taxon:559292 20130807 SGD `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`SGD S000003035 NPY1 involved_in GO:0006734 PMID:11361135 IDA P NAD(+) diphosphatase YGL067W protein taxon:559292 20130807 SGD `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`SGD S000004966 HDA1 involved_in GO:0010621 PMID:17974563 IGI SGD:S000005274 P histone deacetylase HDA1 YNL021W protein taxon:559292 20130807 SGD `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`SGD S000005173 URE2 involved_in GO:0010621 PMID:10748041 IMP P glutathione peroxidase YNL229C protein taxon:559292 20230224 SGD has_input(SGD:S000000842) `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`SGD S000005173 URE2 involved_in GO:0010621 PMID:10799523 IMP P glutathione peroxidase YNL229C protein taxon:559292 20230224 SGD `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`SGD S000004250 LCB5 enables GO:0017050 PMID:9677363 IDA F sphinganine kinase LCB5 YLR260W protein taxon:559292 20130807 SGD `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`SGD S000005697 LCB4 enables GO:0017050 PMID:9677363 IDA F sphinganine kinase LCB4 YOR171C protein taxon:559292 20130807 SGD `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`SGD S000000206 RER2 involved_in GO:0019408 PMID:10217761 IDA P ditrans,polycis-polyprenyl diphosphate synthase YBR002C protein taxon:559292 20130807 SGD `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`SGD S000000206 RER2 involved_in GO:0019408 PMID:25066056 IDA P ditrans,polycis-polyprenyl diphosphate synthase YBR002C protein taxon:559292 20150702 SGD `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`SGD S000001311 DFG10 involved_in GO:0019408 PMID:20637498 IMP P putative polyprenol reductase YIL049W protein taxon:559292 20130807 SGD `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`SGD S000002352 NUS1 involved_in GO:0019408 PMID:25066056 IDA P ditrans,polycis-polyprenyl diphosphate synthase YDL193W protein taxon:559292 20150702 SGD `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`SGD S000004707 SRT1 involved_in GO:0019408 PMID:25066056 IDA P ditrans,polycis-polyprenyl diphosphate synthase YMR101C protein taxon:559292 20150702 SGD `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`SGD S000001117 PPE1 enables GO:0051722 PMID:11060018 IMP F phosphoprotein phosphatase methylesterase 1 YHR075C protein taxon:559292 20221021 SGD part_of(GO:1990577),has_input(SGD:S000002292),has_input(SGD:S000002347) `
• WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`SGD S000000022 LTE1 involved_in GO:0061510 PMID:19948498 IMP P mitotic regulator LTE1 MSI2|YAL024C protein taxon:559292 20200520 SGD has_input(SGD:S000003814) `

gorule-0000046

The ‘with’ field (GAF column 8) must be the same as the gene product (GAF column 2) when annotating to ‘self-binding’ terms.

• total: 1

messages

• WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`SGD S000002796 RVS167 enables GO:0042803 PMID:32015451 IDA F amphiphysin YDR388W protein taxon:559292 20200210 SGD `