Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)

ONTOLOGY REPORT - ANNOTATIONS

Term:phagophore assembly site
go back to main search page
Accession:GO:0000407 term browser browse the term
Definition:Punctate structures proximal to the endoplasmic reticulum which are the sites where the Atg machinery assembles upon autophagy induction.
Synonyms:exact_synonym: PAS
 narrow_synonym: perivacuolar space;   pre-autophagosomal structure


show annotations for term's descendants           Sort by:
phagophore assembly site term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atg101 autophagy related 101 located_in
is_active_in		 ISO
IEA
IBA		 (PMID:19597335)
GO_REF:0000044
(PMID:18936157)
GO_REF:0000033		 RGD
UniProt
GO_Central		 PMID:18936157 PMID:19597335 GO_REF:0000033 GO_REF:0000044 NCBI chr 7:134,277,223...134,286,387
Ensembl chr 7:132,398,483...132,407,633 		JBrowse link
G Atg13 autophagy related 13 is_active_in
located_in		 IBA
IEA
ISO		 GO_REF:0000033
GO_REF:0000107
GO_REF:0000044
(PMID:19597335)
(PMID:18936157), (PMID:19211835), (PMID:19258318)		 GO_Central
Ensembl
UniProt
RGD		 PMID:18936157 PMID:19211835 PMID:19258318 PMID:19597335 GO_REF:0000033 GO_REF:0000044 GO_REF:0000107 NCBI chr 3:98,102,831...98,136,741
Ensembl chr 3:77,645,790...77,681,043 		JBrowse link
G Atg14 autophagy related 14 is_active_in ISO
IEA		 (PMID:20713597)
GO_REF:0000107		 RGD
Ensembl		 PMID:20713597 GO_REF:0000107 NCBI chr15:23,275,457...23,306,817
Ensembl chr15:20,795,750...20,827,113 		JBrowse link
G Atg2a autophagy related 2A is_active_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 1:212,971,822...212,991,505
Ensembl chr 1:203,542,559...203,562,242 		JBrowse link
G Atg2b autophagy related 2B is_active_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 6:130,286,979...130,357,109
Ensembl chr 6:124,525,523...124,592,015 		JBrowse link
G Atg3 autophagy related 3 is_active_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr11:69,130,948...69,159,280
Ensembl chr11:55,624,917...55,653,224 		JBrowse link
G Atg7 autophagy related 7 located_in
is_active_in		 IEA
IBA
ISO		 GO_REF:0000044
GO_REF:0000107
GO_REF:0000033
(PMID:37943659)		 UniProt
Ensembl
GO_Central
RGD		 PMID:37943659 GO_REF:0000033 GO_REF:0000044 GO_REF:0000107 NCBI chr 4:149,390,000...149,597,534
Ensembl chr 4:147,718,752...147,925,593 		JBrowse link
G Atg9a autophagy related 9A located_in
is_active_in		 ISO
IBA		 (PMID:22456507)
GO_REF:0000033		 RGD
GO_Central		 PMID:22456507 GO_REF:0000033 NCBI chr 9:84,126,071...84,136,723
Ensembl chr 9:76,677,404...76,687,986 		JBrowse link
G Atg9b autophagy related 9B is_active_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 4:11,678,548...11,686,097
Ensembl chr 4:10,786,114...10,793,651 		JBrowse link
G Bcas3 BCAS3, microtubule associated cell migration factor located_in ISO
IEA		 (PMID:33499712)
GO_REF:0000107
GO_REF:0000044		 RGD
Ensembl
UniProt		 PMID:33499712 GO_REF:0000044 GO_REF:0000107 NCBI chr10:70,711,084...71,170,492
Ensembl chr10:70,214,098...70,673,080 		JBrowse link
G Becn1 beclin 1 is_active_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr10:86,731,649...86,747,002
Ensembl chr10:86,231,388...86,246,742 		JBrowse link
G Becn2 beclin 2 is_active_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr13:90,375,186...90,424,533
Ensembl chr13:87,844,531...87,845,787 		JBrowse link
G ENSRNOG00000067694 is_active_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 Ensembl chr20:828,448...830,087 JBrowse link
G Ilrun inflammation and lipid regulator with UBA-like and NBR1-like domains is_active_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr20:5,811,721...5,878,082
Ensembl chr20:5,809,936...5,876,012 		JBrowse link
G Nbr1 NBR1, autophagy cargo receptor is_active_in
located_in		 IBA
ISO		 GO_REF:0000033
(PMID:21220506)		 GO_Central
RGD		 PMID:21220506 GO_REF:0000033 NCBI chr10:86,978,024...87,006,664
Ensembl chr10:86,478,290...86,506,412 		JBrowse link
G Phaf1 phagophore assembly factor 1 located_in ISS
IEA
ISO		 GO_REF:0000024
GO_REF:0000107
GO_REF:0000044
(PMID:33499712)		 UniProt
Ensembl
RGD		 PMID:33499712 GO_REF:0000024 GO_REF:0000044 GO_REF:0000107 NCBI chr19:33,101,453...33,138,920
Ensembl chr19:33,101,490...33,138,914 		JBrowse link
G Pik3c3 phosphatidylinositol 3-kinase, catalytic subunit type 3 is_active_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr18:22,119,677...22,203,546
Ensembl chr18:21,845,295...21,929,048 		JBrowse link
G Rb1cc1 RB1-inducible coiled-coil 1 is_active_in
located_in		 ISO
IEA		 (PMID:28561066)
GO_REF:0000107
(PMID:19597335), (PMID:28561066)
(PMID:18936157), (PMID:19258318)		 RGD
Ensembl		 PMID:18936157 PMID:19258318 PMID:19597335 PMID:28561066 GO_REF:0000107 NCBI chr 5:17,948,522...18,012,434
Ensembl chr 5:13,161,648...13,225,560 		JBrowse link
G Snx30 sorting nexin family member 30 is_active_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 5:79,478,804...79,608,118
Ensembl chr 5:74,684,015...74,792,631 		JBrowse link
G Snx7 sorting nexin 7 is_active_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 2:208,528,041...208,612,597
Ensembl chr 2:205,842,837...205,927,763 		JBrowse link
G Sqstm1 sequestosome 1 located_in ISO
IEA		 (PMID:21220506)
GO_REF:0000107
GO_REF:0000044		 RGD
Ensembl
UniProt		 PMID:21220506 GO_REF:0000044 GO_REF:0000107 NCBI chr10:35,026,598...35,037,750
Ensembl chr10:34,525,519...34,536,673 		JBrowse link
G Stx12 syntaxin 12 located_in ISO (PMID:24095276) RGD PMID:24095276 NCBI chr 5:150,347,554...150,376,426
Ensembl chr 5:145,063,587...145,092,377 		JBrowse link
G Tax1bp1 Tax1 binding protein 1 located_in IEA GO_REF:0000044 UniProt GO_REF:0000044 NCBI chr 4:83,152,549...83,208,463
Ensembl chr 4:81,821,989...81,879,100 		JBrowse link
G Ulk1 unc-51 like autophagy activating kinase 1 is_active_in
located_in		 IBA
IEA
ISO		 GO_REF:0000033
GO_REF:0000107
(PMID:19597335)
(PMID:18936157), (PMID:19258318), (PMID:21220506)		 GO_Central
Ensembl
RGD		 PMID:18936157 PMID:19258318 PMID:19597335 PMID:21220506 GO_REF:0000033 GO_REF:0000107 NCBI chr12:51,511,492...51,537,746
Ensembl chr12:45,851,710...45,877,966 		JBrowse link
G Ulk2 unc-51 like autophagy activating kinase 2 is_active_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr10:46,951,038...47,029,844
Ensembl chr10:46,454,030...46,530,407 		JBrowse link
G Ulk3 unc-51 like kinase 3 is_active_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 8:66,888,820...66,895,380
Ensembl chr 8:57,992,723...57,999,467 		JBrowse link
G Vmp1 vacuole membrane protein 1 located_in IEA
ISO		 GO_REF:0000107
(PMID:21220506)		 Ensembl
RGD		 PMID:21220506 GO_REF:0000107 NCBI chr10:71,903,223...72,002,337
Ensembl chr10:71,405,452...71,505,007 		JBrowse link
G Wdr45 WD repeat domain 45 located_in ISO
IEA
ISS		 (PMID:28561066)
GO_REF:0000107
GO_REF:0000044
GO_REF:0000117
GO_REF:0000024		 RGD
Ensembl
UniProt		 PMID:28561066 GO_REF:0000024 GO_REF:0000044 GO_REF:0000107 GO_REF:0000117 NCBI chr  X:17,448,195...17,454,117
Ensembl chr  X:14,776,293...14,782,202 		JBrowse link
G Wdr45b WD repeat domain 45B located_in ISO
IEA		 (PMID:28561066)
GO_REF:0000107
GO_REF:0000117
GO_REF:0000044		 RGD
Ensembl
UniProt		 PMID:28561066 GO_REF:0000044 GO_REF:0000107 GO_REF:0000117 NCBI chr10:107,097,655...107,127,839
Ensembl chr10:106,599,364...106,629,441 		JBrowse link
G Wipi1 WD repeat domain, phosphoinositide interacting 1 located_in ISO
IEA		 (PMID:15602573), (PMID:28561066), (PMID:33499712)
GO_REF:0000107
GO_REF:0000044
GO_REF:0000117
(PMID:24098492)		 RGD
Ensembl
UniProt		 PMID:15602573 PMID:24098492 PMID:28561066 PMID:33499712 GO_REF:0000044 GO_REF:0000107 GO_REF:0000117 NCBI chr10:95,042,451...95,079,679
Ensembl chr10:94,542,946...94,579,846 		JBrowse link
G Wipi2 WD repeat domain, phosphoinositide interacting 2 located_in ISO
IEA		 (PMID:22456507), (PMID:28561066), (PMID:33499712)
GO_REF:0000107
GO_REF:0000117
(PMID:24954904)		 RGD
Ensembl
UniProt		 PMID:22456507 PMID:24954904 PMID:28561066 PMID:33499712 GO_REF:0000107 GO_REF:0000117 NCBI chr12:17,024,876...17,053,306
Ensembl chr12:11,911,337...11,939,794 		JBrowse link
G Zfyve1 zinc finger FYVE-type containing 1 located_in ISO
IEA		 (PMID:23455425), (PMID:33499712)
GO_REF:0000107		 RGD
Ensembl		 PMID:23455425 PMID:33499712 GO_REF:0000107 NCBI chr 6:108,916,062...108,965,231
Ensembl chr 6:103,184,938...103,234,039 		JBrowse link
extrinsic component of phagophore assembly site membrane term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atg14 autophagy related 14 located_in
is_active_in		 ISO
IBA
IEA		 (PMID:21518905)
GO_REF:0000033
GO_REF:0000107		 RGD
GO_Central
Ensembl		 PMID:21518905 GO_REF:0000033 GO_REF:0000107 NCBI chr15:23,275,457...23,306,817
Ensembl chr15:20,795,750...20,827,113 		JBrowse link
phagophore assembly site membrane term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atg12 autophagy related 12 is_active_in
located_in		 IBA
IEA
ISO		 GO_REF:0000033
GO_REF:0000044
(PMID:11266458), (PMID:12665549)		 GO_Central
UniProt
RGD		 PMID:11266458 PMID:12665549 GO_REF:0000033 GO_REF:0000044 NCBI chr18:41,638,841...41,649,311
Ensembl chr18:39,452,191...39,462,418 		JBrowse link
G Atg13 autophagy related 13 is_active_in ISO
IEA		 (PMID:19597335)
GO_REF:0000107		 RGD
Ensembl		 PMID:19597335 GO_REF:0000107 NCBI chr 3:98,102,831...98,136,741
Ensembl chr 3:77,645,790...77,681,043 		JBrowse link
G Atg14 autophagy related 14 located_in ISO
IEA		 (PMID:19270696)
GO_REF:0000107
GO_REF:0000044		 RGD
Ensembl
UniProt		 PMID:19270696 GO_REF:0000044 GO_REF:0000107 NCBI chr15:23,275,457...23,306,817
Ensembl chr15:20,795,750...20,827,113 		JBrowse link
G Atg16l1 autophagy related 16-like 1 is_active_in
located_in		 IBA
ISO
IEA		 GO_REF:0000033
(PMID:32960676)
GO_REF:0000107
(PMID:12665549)		 GO_Central
RGD
Ensembl		 PMID:12665549 PMID:32960676 GO_REF:0000033 GO_REF:0000107 NCBI chr 9:95,869,839...95,905,354
Ensembl chr 9:88,422,038...88,457,529 		JBrowse link
G Atg16l2 autophagy related 16-like 2 located_in ISO
IEA		 (PMID:12665549)
GO_REF:0000107		 RGD
Ensembl		 PMID:12665549 GO_REF:0000107 NCBI chr 1:165,100,946...165,123,307
Ensembl chr 1:155,684,564...155,703,420 		JBrowse link
G Atg2a autophagy related 2A located_in IEA GO_REF:0000044 UniProt GO_REF:0000044 NCBI chr 1:212,971,822...212,991,505
Ensembl chr 1:203,542,559...203,562,242 		JBrowse link
G Atg2b autophagy related 2B located_in IEA GO_REF:0000044 UniProt GO_REF:0000044 NCBI chr 6:130,286,979...130,357,109
Ensembl chr 6:124,525,523...124,592,015 		JBrowse link
G Atg5 autophagy related 5 located_in
is_active_in		 IEA
ISO
ISS
IBA		 GO_REF:0000044
(PMID:32960676)
GO_REF:0000024
GO_REF:0000107
(PMID:11266458), (PMID:12665549), (PMID:23455425)
GO_REF:0000033		 UniProt
RGD
Ensembl
GO_Central		 PMID:11266458 PMID:12665549 PMID:23455425 PMID:32960676 GO_REF:0000024 GO_REF:0000033 GO_REF:0000044 GO_REF:0000107 NCBI chr20:49,380,835...49,471,826
Ensembl chr20:47,798,290...47,889,209 		JBrowse link
G Atg9a autophagy related 9A located_in IEA GO_REF:0000044
GO_REF:0000104		 UniProt GO_REF:0000044 GO_REF:0000104 NCBI chr 9:84,126,071...84,136,723
Ensembl chr 9:76,677,404...76,687,986 		JBrowse link
G Atg9b autophagy related 9B located_in IEA GO_REF:0000044
GO_REF:0000104		 UniProt GO_REF:0000044 GO_REF:0000104 NCBI chr 4:11,678,548...11,686,097
Ensembl chr 4:10,786,114...10,793,651 		JBrowse link
G Rab1a RAB1A, member RAS oncogene family located_in IEA GO_REF:0000044 UniProt GO_REF:0000044 NCBI chr14:98,623,582...98,648,766
Ensembl chr14:94,415,275...94,448,248 		JBrowse link
G Rab1b RAB1B, member RAS oncogene family located_in ISO
IEA		 (PMID:20545908)
GO_REF:0000044		 RGD
UniProt		 PMID:20545908 GO_REF:0000044 NCBI chr 1:211,835,133...211,843,408
Ensembl chr 1:202,405,759...202,413,868
Ensembl chr  X:202,405,759...202,413,868 		JBrowse link
G Rab33b RAB33B, member RAS oncogene family located_in IEA
ISO		 GO_REF:0000107
(PMID:32960676)		 Ensembl
RGD		 PMID:32960676 GO_REF:0000107 NCBI chr 2:137,678,953...137,689,581
Ensembl chr 2:135,528,116...135,538,719 		JBrowse link
G Rab7a RAB7A, member RAS oncogene family located_in ISO
IEA		 (PMID:19956673)
GO_REF:0000107		 RGD
Ensembl		 PMID:19956673 GO_REF:0000107 NCBI chr 4:122,019,281...122,068,067
Ensembl chr 4:120,461,963...120,506,889 		JBrowse link
G Rb1cc1 RB1-inducible coiled-coil 1 is_active_in
located_in		 IBA
IEA
ISO		 GO_REF:0000033
GO_REF:0000107
(PMID:18443221)		 GO_Central
Ensembl
RGD		 PMID:18443221 GO_REF:0000033 GO_REF:0000107 NCBI chr 5:17,948,522...18,012,434
Ensembl chr 5:13,161,648...13,225,560 		JBrowse link
G Stbd1 starch binding domain 1 located_in IEA GO_REF:0000044 UniProt GO_REF:0000044 NCBI chr14:15,754,769...15,758,174
Ensembl chr14:15,469,582...15,477,443 		JBrowse link
G Ulk1 unc-51 like autophagy activating kinase 1 located_in
is_active_in		 ISO
IEA
IBA		 (PMID:18936157), (PMID:22885598)
GO_REF:0000107
GO_REF:0000104
(PMID:18443221)
GO_REF:0000033		 RGD
Ensembl
UniProt
GO_Central		 PMID:18443221 PMID:18936157 PMID:22885598 GO_REF:0000033 GO_REF:0000104 GO_REF:0000107 NCBI chr12:51,511,492...51,537,746
Ensembl chr12:45,851,710...45,877,966 		JBrowse link
G Ulk2 unc-51 like autophagy activating kinase 2 located_in
is_active_in		 ISO
IEA
IBA		 (PMID:18936157)
GO_REF:0000107
(PMID:18443221)
GO_REF:0000033		 RGD
Ensembl
GO_Central		 PMID:18443221 PMID:18936157 GO_REF:0000033 GO_REF:0000107 NCBI chr10:46,951,038...47,029,844
Ensembl chr10:46,454,030...46,530,407 		JBrowse link
G Ulk3 unc-51 like kinase 3 is_active_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 8:66,888,820...66,895,380
Ensembl chr 8:57,992,723...57,999,467 		JBrowse link
G Wdr45 WD repeat domain 45 is_active_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr  X:17,448,195...17,454,117
Ensembl chr  X:14,776,293...14,782,202 		JBrowse link
G Wdr45b WD repeat domain 45B is_active_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr10:107,097,655...107,127,839
Ensembl chr10:106,599,364...106,629,441 		JBrowse link
G Wipi1 WD repeat domain, phosphoinositide interacting 1 located_in
is_active_in		 ISO
IEA
IBA		 (PMID:17618624)
GO_REF:0000107
GO_REF:0000033		 RGD
Ensembl
GO_Central		 PMID:17618624 GO_REF:0000033 GO_REF:0000107 NCBI chr10:95,042,451...95,079,679
Ensembl chr10:94,542,946...94,579,846 		JBrowse link
G Wipi2 WD repeat domain, phosphoinositide interacting 2 located_in
is_active_in		 ISO
IEA
IBA
ISS		 (PMID:20505359)
GO_REF:0000107
GO_REF:0000044
GO_REF:0000033
GO_REF:0000024		 RGD
Ensembl
UniProt
GO_Central		 PMID:20505359 GO_REF:0000024 GO_REF:0000033 GO_REF:0000044 GO_REF:0000107 NCBI chr12:17,024,876...17,053,306
Ensembl chr12:11,911,337...11,939,794 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  cellular_component 21366
    cellular anatomical structure 21071
      phagophore assembly site 41
        phagophore assembly site membrane + 23
Path 2
Term Annotations click to browse term
  cellular_component 21366
    cellular anatomical structure 21071
      intracellular anatomical structure 15592
        cytoplasm 12301
          phagophore assembly site 41
            phagophore assembly site membrane + 23
paths to the root