# Group: paint - Dataset: paint_cgd

## SUMMARY

This report generated on 2024-12-19

  * Associations: 14477
  * Lines in file (incl headers): 14508
  * Lines skipped: 25
## Header From Original Association File

> !gaf-version: 2.2  
> !Created on Thu Nov 21 14:20:16 2024.  
> !generated-by: PANTHER  
> !date-generated: 2024-11-21  
> !PANTHER version: v.19.0.  
> !GO version: 2024-11-03.  

## Contents

[gorule-0000002](#gorule-0000002)

[gorule-0000005](#gorule-0000005)

[gorule-0000006](#gorule-0000006)

[gorule-0000007](#gorule-0000007)

[gorule-0000008](#gorule-0000008)

[gorule-0000011](#gorule-0000011)

[gorule-0000013](#gorule-0000013)

[gorule-0000015](#gorule-0000015)

[gorule-0000016](#gorule-0000016)

[gorule-0000017](#gorule-0000017)

[gorule-0000018](#gorule-0000018)

[gorule-0000020](#gorule-0000020)

[gorule-0000022](#gorule-0000022)

[gorule-0000028](#gorule-0000028)

[gorule-0000029](#gorule-0000029)

[gorule-0000030](#gorule-0000030)

[gorule-0000037](#gorule-0000037)

[gorule-0000039](#gorule-0000039)

[gorule-0000042](#gorule-0000042)

[gorule-0000043](#gorule-0000043)

[gorule-0000046](#gorule-0000046)

[gorule-0000050](#gorule-0000050)

[gorule-0000055](#gorule-0000055)

[gorule-0000058](#gorule-0000058)

[gorule-0000061](#gorule-0000061)

[gorule-0000063](#gorule-0000063)

[gorule-0000064](#gorule-0000064)

[gorule-0000065](#gorule-0000065)

[other](#other)


## MESSAGES

### gorule-0000002

No 'NOT' annotations to binding ; GO:0005488 or 'protein binding ; GO:0005515'

* total: 0
### gorule-0000005

IEA, ISS, ISO, ISM, ISA, IBA, RCA annotations ae not allowed for direct annotations to to 'protein binding ; GO:0005515 or GO:0005488 binding''

* total: 0
### gorule-0000006

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

* total: 0
### gorule-0000007

IPI should not be used with GO:0003824 catalytic activity or descendents

* total: 0
### gorule-0000008

No annotations should be made to uninformative high level terms

* total: 0
### gorule-0000011

ND evidence code should be to root nodes only, and no terms other than root nodes can have the evidence code ND

* total: 0
### gorule-0000013

Taxon-appropriate annotation check

* total: 17
#### Messages
* ERROR - Violates GO Rule: GORULE:0000013: Taxon-appropriate annotation check -- `CGD	CAL0000178329	MLT1	enables	GO:0015127	GO_REF:0000033	IBA	PANTHER:PTN001200390|SGD:S000003938|SGD:S000002542	F	Multiple drug resistance-associated protein-like transporter 1	UniProtKB:Q5A762|PTN001200394	protein	taxon:237561	20170228	GO_Central		
`
* ERROR - Violates GO Rule: GORULE:0000013: Taxon-appropriate annotation check -- `CGD	CAL0000189420	CAALFM_CR09490WA	enables	GO:0050681	GO_REF:0000033	IBA	PANTHER:PTN008542367|RGD:621227|UniProtKB:Q9UER7	F	Uncharacterized protein	UniProtKB:A0A1D8PTZ2|PTN008542362	protein	taxon:237561	20221208	GO_Central		
`
* ERROR - Violates GO Rule: GORULE:0000013: Taxon-appropriate annotation check -- `CGD	CAL0000179965	TEP1	involved_in	GO:0048870	GO_REF:0000033	IBA	PANTHER:PTN000959472|MGI:MGI:109583|dictyBase:DDB_G0286557	P	Phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase	UniProtKB:Q59LZ6|PTN000959564	protein	taxon:237561	20200305	GO_Central		
`
* ERROR - Violates GO Rule: GORULE:0000013: Taxon-appropriate annotation check -- `CGD	CAL0000178686	YPT72	is_active_in	GO:0045335	GO_REF:0000033	IBA	PANTHER:PTN000635769|UniProtKB:P51149|UniProtKB:Q96AH8|WB:WBGene00004271|dictyBase:DDB_G0269236|UniProtKB:Q9NP90|MGI:MGI:2442295|UniProtKB:P51151	C	Rab family GTPase	UniProtKB:A0A1D8PHR9|PTN002786237	protein	taxon:237561	20201002	GO_Central		
`
* ERROR - Violates GO Rule: GORULE:0000013: Taxon-appropriate annotation check -- `CGD	CAL0000187259	VPS23	involved_in	GO:0008333	GO_REF:0000033	IBA	PANTHER:PTN000592420|RGD:3909|WB:WBGene00015658	P	Ubiquitin-binding ESCRT-I subunit protein	UniProtKB:Q59WF8|PTN001152318	protein	taxon:237561	20211108	GO_Central		
`
* ERROR - Violates GO Rule: GORULE:0000013: Taxon-appropriate annotation check -- `CGD	CAL0000199209	MYO5	is_active_in	GO:0005902	GO_REF:0000033	IBA	PANTHER:PTN001406997|UniProtKB:O00159|MGI:MGI:107732|UniProtKB:Q9UBC5|MGI:MGI:1927091|UniProtKB:P47807	C	Myosin-5	UniProtKB:Q59MQ0|PTN001774308	protein	taxon:237561	20240205	GO_Central		
`
* ERROR - Violates GO Rule: GORULE:0000013: Taxon-appropriate annotation check -- `CGD	CAL0000187689	SSK2	involved_in	GO:0048812	GO_REF:0000033	IBA	PANTHER:PTN000685430|WB:WBGene00003247|MGI:MGI:1915919|RGD:1359135|RGD:621590	P	MAP kinase kinase kinase	UniProtKB:A0A1D8PM87|PTN002807752	protein	taxon:237561	20201002	GO_Central		
`
* ERROR - Violates GO Rule: GORULE:0000013: Taxon-appropriate annotation check -- `CGD	CAL0000179549	YCF1	enables	GO:0015127	GO_REF:0000033	IBA	PANTHER:PTN001200390|SGD:S000003938|SGD:S000002542	F	ATP-binding cassette glutathione S-conjugate transporter	UniProtKB:A0A1D8PR42|PTN002795618	protein	taxon:237561	20170228	GO_Central		
`
* ERROR - Violates GO Rule: GORULE:0000013: Taxon-appropriate annotation check -- `CGD	CAL0000175369	ISC1	is_active_in	GO:0016605	GO_REF:0000033	IBA	PANTHER:PTN001039821|UniProtKB:O95551	C	Inositol phosphosphingolipid phospholipase	UniProtKB:A0A1D8PT33|PTN002697190	protein	taxon:237561	20170427	GO_Central		
`
* ERROR - Violates GO Rule: GORULE:0000013: Taxon-appropriate annotation check -- `CGD	CAL0000200026	GPD1	enables	GO:0047952	GO_REF:0000033	IBA	PANTHER:PTN000919759|MGI:MGI:95679|UniProtKB:C8VTT9|SGD:S000005420|SGD:S000002180	F	Glycerol-3-phosphate dehydrogenase [NAD(+)]	UniProtKB:Q59XU9|PTN000919791	protein	taxon:237561	20241120	GO_Central		
`
* ERROR - Violates GO Rule: GORULE:0000013: Taxon-appropriate annotation check -- `CGD	CAL0000177153	KIN2	enables	GO:0050321	GO_REF:0000033	IBA	PANTHER:PTN000680111|UniProtKB:P27448|FB:FBgn0260934|UniProtKB:Q7KZI7|RGD:708483|UniProtKB:Q96L34	F	non-specific serine_threonine protein kinase	UniProtKB:A0A1D8PRN8|PTN002804717	protein	taxon:237561	20200809	GO_Central		
`
* ERROR - Violates GO Rule: GORULE:0000013: Taxon-appropriate annotation check -- `CGD	CAL0000183742	CAALFM_CR08200CA	enables	GO:0015127	GO_REF:0000033	IBA	PANTHER:PTN001200390|SGD:S000003938|SGD:S000002542	F	ATP-binding cassette bilirubin transporter	UniProtKB:A0A1D8PTN6|PTN002795617	protein	taxon:237561	20170228	GO_Central		
`
* ERROR - Violates GO Rule: GORULE:0000013: Taxon-appropriate annotation check -- `CGD	CAL0000189420	CAALFM_CR09490WA	is_active_in	GO:0016605	GO_REF:0000033	IBA	PANTHER:PTN008542367|RGD:621227|UniProtKB:Q9UER7|MGI:MGI:1197015	C	Uncharacterized protein	UniProtKB:A0A1D8PTZ2|PTN008542362	protein	taxon:237561	20241120	GO_Central		
`
* ERROR - Violates GO Rule: GORULE:0000013: Taxon-appropriate annotation check -- `CGD	CAL0000178854	YPT7	is_active_in	GO:0045335	GO_REF:0000033	IBA	PANTHER:PTN000635769|UniProtKB:P51149|UniProtKB:Q96AH8|WB:WBGene00004271|dictyBase:DDB_G0269236|UniProtKB:Q9NP90|MGI:MGI:2442295|UniProtKB:P51151	C	Ypt7p	UniProtKB:Q5AI78|PTN001178558	protein	taxon:237561	20201002	GO_Central		
`
* ERROR - Violates GO Rule: GORULE:0000013: Taxon-appropriate annotation check -- `CGD	CAL0000186831	NRG1	part_of	GO:0031519	GO_REF:0000033	IBA	PANTHER:PTN000360827|MGI:MGI:99150|FB:FBgn0002521	C	Transcriptional regulator NRG1	UniProtKB:Q5A0E5|PTN001421614	protein	taxon:237561	20170602	GO_Central		
`
* ERROR - Violates GO Rule: GORULE:0000013: Taxon-appropriate annotation check -- `CGD	CAL0000196952	CGR1	involved_in	GO:0019853	GO_REF:0000033	IBA	PANTHER:PTN000097355|MGI:MGI:108024	P	Cell growth-regulated gene 1 protein	UniProtKB:P56553|PTN000856224	protein	taxon:237561	20170228	GO_Central		
`
* ERROR - Violates GO Rule: GORULE:0000013: Taxon-appropriate annotation check -- `CGD	CAL0000176146	GPD2	enables	GO:0047952	GO_REF:0000033	IBA	PANTHER:PTN000919759|MGI:MGI:95679|UniProtKB:C8VTT9|SGD:S000005420|SGD:S000002180	F	Glycerol-3-phosphate dehydrogenase [NAD(+)] 2	UniProtKB:Q59W33|PTN000919790	protein	taxon:237561	20241120	GO_Central		
`
### gorule-0000015

Dual species taxon check

* total: 0
### gorule-0000016

With/From: IC annotations require a With/From GO ID

* total: 0
### gorule-0000017

IDA annotations must not have a With/From entry

* total: 0
### gorule-0000018

IPI annotations require a With/From entry

* total: 0
### gorule-0000020

Automatic repair of annotations to merged or obsoleted terms

* total: 18
#### Messages
* ERROR - Obsolete class with no replacement: Violates GORULE:0000020 (GO:0006266) -- `CGD	CAL0000199743	CAALFM_C300830CA	involved_in	GO:0006266	GO_REF:0000033	IBA	PANTHER:PTN000048696|RGD:1309875|SGD:S000002323|UniProtKB:P49916	P	DNA ligase	UniProtKB:A0A1D8PJ08|PTN000825565	protein	taxon:237561	20241121	GO_Central		
`
* ERROR - Obsolete class with no replacement: Violates GORULE:0000020 (GO:0006880) -- `CGD	CAL0000198298	CCC1	involved_in	GO:0006880	GO_REF:0000033	IBA	PANTHER:PTN001275041|TAIR:locus:2090305|UniProtKB:Q6MWE5|UniProtKB:Q6ERE5|TAIR:locus:2199572|TAIR:locus:2030091	P	Ccc1p	UniProtKB:Q59SS1|PTN001275048	protein	taxon:237561	20230407	GO_Central		
`
* ERROR - Obsolete class with no replacement: Violates GORULE:0000020 (GO:0032508) -- `CGD	CAL0000177726	CHL1	involved_in	GO:0032508	GO_REF:0000033	IBA	PANTHER:PTN000158371|UniProtKB:Q96FC9	P	ATP-dependent DNA helicase CHL1	UniProtKB:Q5AD67|PTN000895426	protein	taxon:237561	20200929	GO_Central		
`
* ERROR - Obsolete class with no replacement: Violates GORULE:0000020 (GO:0032508) -- `CGD	CAL0000184671	RAD50	involved_in	GO:0032508	GO_REF:0000033	IBA	PANTHER:PTN000429848|UniProtKB:Q92878	P	MRX complex DNA-binding subunit	UniProtKB:A0A1D8PJD1|PTN002705957	protein	taxon:237561	20170228	GO_Central		
`
* ERROR - Obsolete class with no replacement: Violates GORULE:0000020 (GO:0042989) -- `CGD	CAL0000192977	CAALFM_C206770WA	involved_in	GO:0042989	GO_REF:0000033	IBA	PANTHER:PTN001011683|SGD:S000003312|MGI:MGI:1346078|MGI:MGI:1100520	P	ADF-H domain-containing protein	UniProtKB:A0A1D8PHR2|PTN002673729	protein	taxon:237561	20170421	GO_Central		
`
* ERROR - Obsolete class with no replacement: Violates GORULE:0000020 (GO:0042989) -- `CGD	CAL0000200755	PFY1	involved_in	GO:0042989	GO_REF:0000033	IBA	PANTHER:PTN000176159|SGD:S000005648|UniProtKB:P35081|UniProtKB:O22655|UniProtKB:Q8I2J4|UniProtKB:Q9FR39	P	Profilin	UniProtKB:Q5A786|PTN000906051	protein	taxon:237561	20230110	GO_Central		
`
* ERROR - Obsolete class with no replacement: Violates GORULE:0000020 (GO:0044806) -- `CGD	CAL0000174602	RRM3	involved_in	GO:0044806	GO_REF:0000033	IBA	PANTHER:PTN001149933|SGD:S000001073|SGD:S000004526|PomBase:SPBC887.14c	P	ATP-dependent DNA helicase RRM3	UniProtKB:A0A1D8PRM6|PTN002760255	protein	taxon:237561	20221209	GO_Central		
`
* ERROR - Obsolete class with no replacement: Violates GORULE:0000020 (GO:0044806) -- `CGD	CAL0000185430	PIF1	involved_in	GO:0044806	GO_REF:0000033	IBA	PANTHER:PTN001149933|SGD:S000001073|SGD:S000004526|PomBase:SPBC887.14c	P	ATP-dependent DNA helicase PIF1	UniProtKB:Q59RQ0|PTN001149938	protein	taxon:237561	20221209	GO_Central		
`
* WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0006268) -- `CGD	CAL0000192979	MCM6	involved_in	GO:0006268	GO_REF:0000033	IBA	PANTHER:PTN000180096|MGI:MGI:1298227|UniProtKB:Q14566|SGD:S000003169	P	DNA replication licensing factor MCM6	UniProtKB:A0A1D8PS48|PTN002615090	protein	taxon:237561	20211215	GO_Central		
`
* WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0006268) -- `CGD	CAL0000195352	CDC47	involved_in	GO:0006268	GO_REF:0000033	IBA	PANTHER:PTN000180038|MGI:MGI:1298398|UniProtKB:P33993|SGD:S000000406	P	DNA replication licensing factor MCM7	UniProtKB:A0A1D8PIE7|PTN002615114	protein	taxon:237561	20211215	GO_Central		
`
* WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0006268) -- `CGD	CAL0000185821	SGS1	involved_in	GO:0006268	GO_REF:0000033	IBA	PANTHER:PTN000344874|SGD:S000004802	P	DNA helicase	UniProtKB:Q5A5R4|PTN001009296	protein	taxon:237561	20190319	GO_Central		
`
* WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0006268) -- `CGD	CAL0000176876	CDC54	involved_in	GO:0006268	GO_REF:0000033	IBA	PANTHER:PTN000179968|SGD:S000006223|UniProtKB:P33991|MGI:MGI:103199	P	DNA replication licensing factor MCM4	UniProtKB:A0A1D8PFE6|PTN002615187	protein	taxon:237561	20211215	GO_Central		
`
* WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0006268) -- `CGD	CAL0000182022	RIM1	involved_in	GO:0006268	GO_REF:0000033	IBA	PANTHER:PTN000033807|FB:FBgn0010438|UniProtKB:Q04837	P	Single-stranded DNA-binding protein	UniProtKB:Q5AA01|PTN000816311	protein	taxon:237561	20240820	GO_Central		
`
* WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0006268) -- `CGD	CAL0000193282	MCM2	involved_in	GO:0006268	GO_REF:0000033	IBA	PANTHER:PTN000179907|UniProtKB:Q2R482|MGI:MGI:105380|UniProtKB:P49736	P	DNA replication licensing factor MCM2	UniProtKB:Q5A034|PTN000908316	protein	taxon:237561	20211215	GO_Central		
`
* WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0006268) -- `CGD	CAL0000199773	RFA1	involved_in	GO:0006268	GO_REF:0000033	IBA	PANTHER:PTN000588618|SGD:S000000065	P	Replication protein A subunit	UniProtKB:Q5ACX4|PTN001149852	protein	taxon:237561	20210531	GO_Central		
`
* WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0070413) -- `CGD	CAL0000182821	TPS1	involved_in	GO:0070413	GO_REF:0000033	IBA	PANTHER:PTN000846179|SGD:S000002481|PomBase:SPAC328.03	P	Alpha,alpha-trehalose-phosphate synthase [UDP-forming]	UniProtKB:Q92410|PTN000846256	protein	taxon:237561	20170228	GO_Central		
`
* WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0070413) -- `CGD	CAL0000193855	TPS2	involved_in	GO:0070413	GO_REF:0000033	IBA	PANTHER:PTN000846179|SGD:S000002481|PomBase:SPAC328.03	P	Trehalose-phosphatase	UniProtKB:Q5AI14|PTN000846220	protein	taxon:237561	20170228	GO_Central		
`
* WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0070413) -- `CGD	CAL0000186940	TPS3	involved_in	GO:0070413	GO_REF:0000033	IBA	PANTHER:PTN000846179|SGD:S000002481|PomBase:SPAC328.03	P	Trehalose 6-phosphate synthase_phosphatase complex subunit	UniProtKB:A0A1D8PIS4|PTN002584036	protein	taxon:237561	20170228	GO_Central		
`
### gorule-0000022

Check for, and filter, annotations made to retracted publications

* total: 0
### gorule-0000028

GO aspect should match the term's namespace; otherwise it is repaired to the appropriate aspect

* total: 0
### gorule-0000029

IEAs should be less than one year old.

* total: 0
### gorule-0000030

Obsolete GO_REFs are not allowed

* total: 0
### gorule-0000037

IBA annotations should ONLY be assigned_by GO_Central and have GO_REF:0000033 as a reference

* total: 0
### gorule-0000039

Protein complexes can not be annotated to GO:0032991 (protein-containing complex) or its descendants

* total: 0
### gorule-0000042

Qualifier: IKR evidence code requires a NOT qualifier

* total: 0
### gorule-0000043

Check for valid combination of evidence code and GO_REF

* total: 0
### 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 -- `CGD	CAL0000187583	CSU57	enables	GO:0042803	GO_REF:0000033	IBA	PANTHER:PTN000322234|UniProtKB:Q9BRG1	F	ESCRT-II subunit protein	UniProtKB:Q5AK78|PTN000994430	protein	taxon:237561	20170228	GO_Central		
`
### gorule-0000050

Annotations to ISS, ISA and ISO should not be self-referential

* total: 0
### gorule-0000055

References should have only one ID per ID space

* total: 0
### gorule-0000058

Object extensions should conform to the extensions-patterns.yaml file in metadata

* total: 0
### gorule-0000061

Allowed gene product to term relations (gp2term)

* total: 0
### gorule-0000063

Annotations using ISS/ISA/ISO evidence should refer to a gene product (in the 'with' column)

* total: 0
### gorule-0000064

TreeGrafter IEAs should be filtered for GO reference species

* total: 0
### gorule-0000065

Annotations to term that are candidates for obsoletion should be removed

* total: 5
#### Messages
* WARNING - Violates GO Rule: GORULE:0000065: Annotations to term that are candidates for obsoletion should be removed -- `CGD	CAL0000188769	MNT3	involved_in	GO:0097502	GO_REF:0000033	IBA	PANTHER:PTN001579360|PomBase:SPBC19C7.12c	P	Probable mannosyltransferase MNT3	UniProtKB:P87207|PTN001258797	protein	taxon:237561	20241120	GO_Central		
`
* WARNING - Violates GO Rule: GORULE:0000065: Annotations to term that are candidates for obsoletion should be removed -- `CGD	CAL0000188888	MNT2	involved_in	GO:0097502	GO_REF:0000033	IBA	PANTHER:PTN001579360|PomBase:SPBC19C7.12c	P	Glycolipid 2-alpha-mannosyltransferase 2	UniProtKB:P46592|PTN001258796	protein	taxon:237561	20241120	GO_Central		
`
* WARNING - Violates GO Rule: GORULE:0000065: Annotations to term that are candidates for obsoletion should be removed -- `CGD	CAL0000188662	MNT1	involved_in	GO:0097502	GO_REF:0000033	IBA	PANTHER:PTN001579360|PomBase:SPBC19C7.12c	P	Glycolipid 2-alpha-mannosyltransferase 1	UniProtKB:Q00310|PTN001258798	protein	taxon:237561	20241120	GO_Central		
`
* WARNING - Violates GO Rule: GORULE:0000065: Annotations to term that are candidates for obsoletion should be removed -- `CGD	CAL0000179131	KTR4	involved_in	GO:0097502	GO_REF:0000033	IBA	PANTHER:PTN001579360|PomBase:SPBC19C7.12c	P	Mannosyltransferase	UniProtKB:Q59QH4|PTN001258780	protein	taxon:237561	20241120	GO_Central		
`
* WARNING - Violates GO Rule: GORULE:0000065: Annotations to term that are candidates for obsoletion should be removed -- `CGD	CAL0000183851	KTR2	involved_in	GO:0097502	GO_REF:0000033	IBA	PANTHER:PTN001579360|PomBase:SPBC19C7.12c	P	Mannosyltransferase	UniProtKB:A0A1D8PH51|PTN002828348	protein	taxon:237561	20241120	GO_Central		
`
### other

* total: 0