GORULE violations assigned by xenbase

Contents

gorule-0000006 IEP and HEP usage is restricted to terms from the Biological Process ontology, except when assigned by GOC

gorule-0000013 Taxon-appropriate annotation check

gorule-0000026 IBA annotations must have been sourced from the PAINT inference pipeline

gorule-0000061 Allowed gene product to term relations (gp2term)

MESSAGES

gorule-0000006

IEP and HEP usage is restricted to terms from the Biological Process ontology, except when assigned by GOC

• total: 4

messages

• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`Xenbase XB-GENE-1017281 trim36 is_active_in GO:0005938 PMID:23615278 IEP C tripartite motif containing 36 Haprin protein taxon:8364 20220222 Xenbase `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`Xenbase XB-GENE-1034769 sox9 enables GO:0003714 PMID:22927467 IEP F SRY-box 9 cmd1|cmpd1|sox-9|sox9-a|sox9-b|sra1 protein taxon:8364 20220222 Xenbase part_of(GO:0014029) `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`Xenbase XB-GENE-1034769 sox9 enables GO:0003714 PMID:22927467 IEP F SRY-box 9 cmd1|cmpd1|sox-9|sox9-a|sox9-b|sra1 protein taxon:8364 20220222 Xenbase part_of(GO:0048839) `
• ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`Xenbase XB-GENE-6486303 kmt2d.L is_active_in GO:0005737 PMID:31813957 IEP C lysine methyltransferase 2D L homeolog mll2 protein taxon:8355 20200626 Xenbase `

gorule-0000013

Taxon-appropriate annotation check

• total: 1

messages

• WARNING - Violates GO Rule:GORULE:0000013: Taxon-appropriate annotation check--`Xenbase XB-GENE-17342057 notch1.L acts_upstream_of_or_within GO:1905275 PMID:31899211 IMP P notch 1 receptor L homeolog notch|notch-1|xnotch|x-notch-1|xnotch1|xotch protein taxon:8355 20200626 Xenbase `

gorule-0000026

IBA annotations must have been sourced from the PAINT inference pipeline

• total: 7

messages

• ERROR - Violates GO Rule:GORULE:0000026: IBA evidence codes should be filtered from main MOD gaf sources--`Xenbase XB-GENE-17331693 pes1.L enables GO:0003723 PMID:21873635 IBA PANTHER:PTN000259535 F pescadillo ribosomal biogenesis factor 1 L homeolog germ plasm transcribed locus 1|gptl1|pes|pescadillo protein taxon:8355 20201116 Xenbase `
• ERROR - Violates GO Rule:GORULE:0000026: IBA evidence codes should be filtered from main MOD gaf sources--`Xenbase XB-GENE-17331921 wnt11.L enables GO:0005109 PMID:21873635 IBA PANTHER:PTN000246517 F Wnt family member 11 L homeolog wnt11a|Wnt11r|Wnt11-R|WNT11-related protein taxon:8355 20201118 Xenbase `
• ERROR - Violates GO Rule:GORULE:0000026: IBA evidence codes should be filtered from main MOD gaf sources--`Xenbase XB-GENE-483735 fzd7.L enables GO:0017147 PMID:21873635 IBA PANTHER:PTN000139394 F frizzled class receptor 7 L homeolog frizzled 7|frizzled-7|frizzled7|frz-7|frz7|fz7|Fz-7|Xfz7 protein taxon:8355 20201118 Xenbase `
• ERROR - Violates GO Rule:GORULE:0000026: IBA evidence codes should be filtered from main MOD gaf sources--`Xenbase XB-GENE-483735 fzd7.L enables GO:0042813 PMID:21873635 IBA PANTHER:PTN000139394 F frizzled class receptor 7 L homeolog frizzled 7|frizzled-7|frizzled7|frz-7|frz7|fz7|Fz-7|Xfz7 protein taxon:8355 20201118 Xenbase `
• ERROR - Violates GO Rule:GORULE:0000026: IBA evidence codes should be filtered from main MOD gaf sources--`Xenbase XB-GENE-489012 rac1.L enables GO:0003924 PMID:21873635 IBA PANTHER:PTN000632671 F Rac family small GTPase 1 L homeolog mig5|p21-rac1|rac|tc-25|Xrac protein taxon:8355 20201118 Xenbase `
• ERROR - Violates GO Rule:GORULE:0000026: IBA evidence codes should be filtered from main MOD gaf sources--`Xenbase XB-GENE-865024 dvl1.L enables GO:0005109 PMID:21873635 IBA PANTHER:PTN000093831 F dishevelled segment polarity protein 1 L homeolog dishevelled1|dsh|dsh1|dvl-1|LOC108697641|Xdd1|Xdsh protein taxon:8355 20201118 Xenbase `
• ERROR - Violates GO Rule:GORULE:0000026: IBA evidence codes should be filtered from main MOD gaf sources--`Xenbase XB-GENE-865070 fzd3.L enables GO:0042813 PMID:21873635 IBA PANTHER:PTN000139394 F frizzled class receptor 3 L homeolog frizzled 3|frizzled-3|frizzled3|frz-3|frz3|fz3|Fz-3|Xfz3 protein taxon:8355 20201116 Xenbase `

gorule-0000061

Allowed gene product to term relations (gp2term)

• total: 2

messages

• WARNING - Violates GO Rule:GORULE:0000061: Found violation of: `Only certain gene product to term relations are allowed for a given GO term` but was repaired: RO:0002432 should be one of BFO:0000050. Repaired to BFO:0000050--`Xenbase XB-GENE-6251797 vangl2.L is_active_in GO:0098797 PMID:34806749 IDA C VANGL planar cell polarity protein 2 L homeolog lpp1|ltap|stb1|stbm|stbm1|strabismus|vang|vangl2-a|vangl2-b|vang-like 2|Van Gogh|van gogh-like2|Xstrabismus protein taxon:8355 20230509 Xenbase `
• WARNING - Violates GO Rule:GORULE:0000061: Found violation of: `Only certain gene product to term relations are allowed for a given GO term` but was repaired: RO:0002432 should be one of BFO:0000050. Repaired to BFO:0000050--`Xenbase XB-GENE-940037 prickle3.L is_active_in GO:0098797 PMID:34806749 IDA C prickle homolog 3 L homeolog LOC108699981|pk3|prickle-3 protein taxon:8355 20230509 Xenbase `