GORULE violations assigned by pombase

Contents

gorule-0000001 Problem parsing with/from

gorule-0000008 GORULE:0000008: No annotations should be made to uninformatively high level terms

gorule-0000020 Violates GORULE:0000020, but was repaired

gorule-0000061 GORULE:0000061: Found violation of: `Only certain gene product to term relations are allowed for a given GO term` but was repaired: BFO:0000050 should be one of RO:0002432, RO:0001025, RO:0002325

MESSAGES

gorule-0000001

Problem parsing with/from

• total: 5

messages

• PomBase SPAC17G8.07 yaf9 involved_in GO:0140861 GO_REF:0000111 IC GO: P NuA4 and Swr1 complex YEATS family subunit Yaf9 protein taxon:4896 20230412 PomBase
• PomBase SPAC3G9.08 png1 involved_in GO:0140861 GO_REF:0000111 IC GO: P Rpd3L and NuA4 histone acetyltransferase complex ING family subunit Png1 protein taxon:4896 20230412 PomBase
• PomBase SPAC6F6.09 eaf6 involved_in GO:0140861 GO_REF:0000111 IC GO: P Mst2/NuA4 histone acetyltransferase complex subunit Eaf6 protein taxon:4896 20230412 PomBase
• PomBase SPAC9G1.13c swc4 involved_in GO:0140861 GO_REF:0000111 IC GO: P Swr1 complex subunit Swc4 protein taxon:4896 20230412 PomBase
• PomBase SPBC16A3.19 eaf7 involved_in GO:0140861 GO_REF:0000111 IC GO: P NuA4 histone acetyltransferase complex subunit Eaf7 protein taxon:4896 20230412 PomBase

gorule-0000008

GORULE:0000008: No annotations should be made to uninformatively high level terms

• total: 6

messages

• PomBase SPAC27F1.02c cdc8 enables GO:0098772 PMID:12796476 IDA F tropomyosin fus4 protein taxon:4896 20200317 PomBase has_input(PomBase:SPAC1F5.04c)
• PomBase SPAC4C5.02c ryh1 enables GO:0098772 PMID:21035342 EXP F Rab family GTPase Ryh1 hos1|sat7 protein taxon:4896 20210129 PomBase has_input(PomBase:SPBC30D10.10c),part_of(GO:1904515)
• PomBase SPCC777.08c bit61 enables GO:0098772 PMID:21035342 EXP F Protor homolog, Bit61 protein taxon:4896 20210129 PomBase has_input(PomBase:SPBC30D10.10c),part_of(GO:0038203)
• JaponicusDB SJAG_01020 bit61 enables GO:0098772 GO_REF:0000107 IEA PomBase:SPCC777.08c F Protor homolog, Bit61 protein taxon:4897 20230510 PomBase
• JaponicusDB SJAG_04887 cdc8 enables GO:0098772 GO_REF:0000107 IEA PomBase:SPAC27F1.02c F tropomyosin protein taxon:4897 20230510 PomBase
• JaponicusDB SJAG_05030 ryh1 enables GO:0098772 GO_REF:0000107 IEA PomBase:SPAC4C5.02c F Rab family GTPase Ryh1 protein taxon:4897 20230510 PomBase

gorule-0000020

Violates GORULE:0000020, but was repaired

• total: 4

messages

• PomBase SPAC31A2.06 atp25 involved_in GO:0140053 GO_REF:0000036 IC GO:0004652,GO:0005743 P mitochondrial polynucleotide adenylyltransferase Atp25 protein taxon:4896 20170628 PomBase
• PomBase SPBP8B7.07c set6 part_of GO:0000785 GO_REF:0000111 IC GO:0018024 C histone lysine methyltransferase Set6 protein taxon:4896 20041208 PomBase
• PomBase SPCC1739.05 set5 part_of GO:0000785 PMID:15550243 IC GO:0018024 C histone lysine methyltransferase Set5 protein taxon:4896 20041208 PomBase
• PomBase SPCC297.04c set7 part_of GO:0000785 PMID:15550243 IC GO:0018024 C histone lysine H3-K37 methyltransferase Set7 protein taxon:4896 20041208 PomBase

gorule-0000061

GORULE:0000061: Found violation of: `Only certain gene product to term relations are allowed for a given GO term` but was repaired: BFO:0000050 should be one of RO:0002432, RO:0001025, RO:0002325

• total: 14

messages

• PomBase SPAC4F10.14c btf3 part_of GO:0042788 PMID:17211518 IPI PomBase:SPAC4F10.14c C nascent polypeptide-associated complex beta subunit btt1|egd1|nac2 protein taxon:4896 20201126 PomBase
• PomBase SPAC688.06c slx4 part_of GO:0030875 PMID:14528010 IPI PomBase:SPAP27G11.15 C structure-specific endonuclease subunit Slx4 protein taxon:4896 20191106 PomBase
• PomBase SPAP27G11.15 slx1 part_of GO:0030875 PMID:14528010 IDA C structure-specific endonuclease catalytic subunit Slx1 protein taxon:4896 20191106 PomBase
• PomBase SPBC25H2.05 egd2 part_of GO:0042788 PMID:17211518 IPI PomBase:SPAC4F10.14c C nascent polypeptide-associated complex alpha subunit Egd2 nac1 protein taxon:4896 20201126 PomBase
• PomBase SPBC29A10.10c dbl8 part_of GO:0030874 PMID:31294478 IDA C ATP-dependent RNA helicase Dbl8 protein taxon:4896 20190726 PomBase
• PomBase SPCC16A11.17 mcm4 part_of GO:0030875 PMID:10747035 IDA C MCM complex subunit Mcm4/Cdc21 SPCC24B10.01|cdc21|rid2 protein taxon:4896 20120919 PomBase existence_overlaps(GO:0010458)
• PomBase SPCC16A11.17 mcm4 part_of GO:0030875 PMID:10747035 IDA C MCM complex subunit Mcm4/Cdc21 SPCC24B10.01|cdc21|rid2 protein taxon:4896 20120919 PomBase existence_overlaps(GO:0000080)
• PomBase SPCC16A11.17 mcm4 part_of GO:0030875 PMID:10747035 IDA C MCM complex subunit Mcm4/Cdc21 SPCC24B10.01|cdc21|rid2 protein taxon:4896 20120919 PomBase existence_overlaps(GO:0000087)
• JaponicusDB SJAG_01641 egd2 part_of GO:0042788 GO_REF:0000107 IEA PomBase:SPBC25H2.05 C nascent polypeptide-associated complex alpha subunit Egd2 protein taxon:4897 20230510 PomBase
• JaponicusDB SJAG_01733 btf3 part_of GO:0042788 GO_REF:0000107 IEA PomBase:SPAC4F10.14c C nascent polypeptide-associated complex beta subunit protein taxon:4897 20230510 PomBase
• JaponicusDB SJAG_03923 dbl8 part_of GO:0030874 GO_REF:0000107 IEA PomBase:SPBC29A10.10c C ATP-dependent RNA helicase Dbl8 protein taxon:4897 20230510 PomBase
• JaponicusDB SJAG_04210 mcm4 part_of GO:0030875 GO_REF:0000107 IEA PomBase:SPCC16A11.17 C MCM complex subunit Mcm4/Cdc21 protein taxon:4897 20230510 PomBase
• JaponicusDB SJAG_05180 slx4 part_of GO:0030875 GO_REF:0000107 IEA PomBase:SPAC688.06c C structure-specific endonuclease subunit Slx4 protein taxon:4897 20230510 PomBase
• JaponicusDB SJAG_05237 slx1 part_of GO:0030875 GO_REF:0000107 IEA PomBase:SPAP27G11.15 C structure-specific endonuclease catalytic subunit Slx1 protein taxon:4897 20230510 PomBase