ATG5 (autophagy related 5) - Rat Genome Database

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)
Gene: ATG5 (autophagy related 5) Chlorocebus sabaeus
Analyze
Symbol: ATG5
Name: autophagy related 5
RGD ID: 18450783
Description: ENCODES a protein that exhibits Atg8-family ligase activity (inferred); INVOLVED IN antigen processing and presentation of endogenous antigen (ortholog); apoptotic process (ortholog); autophagosome assembly (ortholog); PARTICIPATES IN autophagy pathway; ASSOCIATED WITH amyotrophic lateral sclerosis (ortholog); anemia (ortholog); autosomal recessive spinocerebellar ataxia 25 (ortholog); FOUND IN axon (ortholog); glutamatergic synapse (ortholog); protein-containing complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: autophagy protein 5
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11367,482,538 - 67,619,201 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1367,482,595 - 67,617,902 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604039,817,584 - 39,954,576 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
aggrephagy  (IEA)
antigen processing and presentation of endogenous antigen  (IEA,ISO)
apoptotic process  (IEA,ISO)
autophagosome assembly  (IEA,ISO)
autophagy  (IEA,ISO)
autophagy of mitochondrion  (IEA)
axonal transport  (IEA)
blood vessel remodeling  (IEA,ISO)
cardiac muscle cell apoptotic process  (IEA,ISO)
cellular response to nitrogen starvation  (IEA)
cellular response to nitrosative stress  (IEA)
cellular response to starvation  (IEA,ISO)
chaperone-mediated autophagy  (ISO)
chromatin organization  (IEA,ISO)
defense response to virus  (IEA,ISO)
establishment of localization in cell  (IEA,ISO)
heart contraction  (IEA,ISO)
innate immune response  (IEA,ISO)
macroautophagy  (IEA,ISO)
mitophagy  (IEA)
mucus secretion  (IEA,ISO)
negative regulation of apoptotic process  (IEA,ISO)
negative regulation of autophagic cell death  (IEA,ISO)
negative regulation of cardiac muscle cell apoptotic process  (IEA,ISO)
negative regulation of defense response to virus  (IEA)
negative regulation of innate immune response  (IEA)
negative regulation of phagocytosis  (IEA,ISO)
negative regulation of protein ubiquitination  (IEA,ISO)
negative regulation of reactive oxygen species metabolic process  (IEA)
negative regulation of type I interferon production  (IEA)
negative stranded viral RNA replication  (IEA,ISO)
negative thymic T cell selection  (IEA,ISO)
otolith development  (IEA,ISO)
piecemeal microautophagy of the nucleus  (IEA)
positive regulation of autophagy  (ISO)
positive regulation of mucus secretion  (IEA,ISO)
positive regulation of stress granule assembly  (ISO)
positive regulation of viral translation  (IEA)
post-translational protein modification  (IEA)
postsynaptic modulation of chemical synaptic transmission  (IEA)
protein lipidation involved in autophagosome assembly  (ISO)
protein ubiquitination  (IEA,ISO)
regulation of autophagosome maturation  (IEA)
regulation of cilium assembly  (IEA)
regulation of cytokine production involved in immune response  (IEA,ISO)
regulation of postsynaptic membrane neurotransmitter receptor levels  (IEA)
regulation of reactive oxygen species metabolic process  (IEA,ISO)
regulation of release of sequestered calcium ion into cytosol  (IEA,ISO)
response to fluoride  (ISO)
response to fungus  (IEA,ISO)
response to iron(II) ion  (ISO)
response to xenobiotic stimulus  (IEA,ISO)
vasodilation  (IEA,ISO)
ventricular cardiac muscle cell development  (IEA,ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
ATG5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11367,482,538 - 67,619,201 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1367,482,595 - 67,617,902 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604039,817,584 - 39,954,576 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
ATG5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386106,184,476 - 106,325,760 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6106,045,423 - 106,325,791 (-)EnsemblGRCh38hg38GRCh38
GRCh376106,632,351 - 106,773,635 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 366106,739,045 - 106,880,388 (-)NCBINCBI36Build 36hg18NCBI36
Build 346106,739,044 - 106,880,359NCBI
Celera6107,253,905 - 107,395,251 (-)NCBICelera
Cytogenetic Map6q21NCBI
HuRef6104,079,375 - 104,220,613 (-)NCBIHuRef
CHM1_16106,894,763 - 107,036,172 (-)NCBICHM1_1
T2T-CHM13v2.06107,360,315 - 107,501,922 (-)NCBIT2T-CHM13v2.0
Atg5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391044,144,325 - 44,240,295 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1044,144,354 - 44,240,287 (+)EnsemblGRCm39 Ensembl
GRCm381044,268,322 - 44,364,299 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1044,268,358 - 44,364,291 (+)EnsemblGRCm38mm10GRCm38
MGSCv371043,988,164 - 44,084,097 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361043,956,773 - 44,052,706 (+)NCBIMGSCv36mm8
Celera1045,141,131 - 45,237,099 (+)NCBICelera
Cytogenetic Map10B2NCBI
cM Map1023.24NCBI
Atg5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82049,380,835 - 49,471,826 (+)NCBIGRCr8
mRatBN7.22047,798,217 - 47,889,216 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2047,798,290 - 47,889,209 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2049,539,098 - 49,629,485 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02049,188,983 - 49,279,371 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02049,872,609 - 49,962,985 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02049,301,783 - 49,393,147 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2049,318,308 - 49,393,140 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02050,934,688 - 51,026,125 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42048,273,977 - 48,366,743 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12048,302,673 - 48,395,435 (+)NCBI
Celera2052,117,260 - 52,207,732 (-)NCBICelera
Cytogenetic Map20q13NCBI
Atg5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541131,522,420 - 31,646,827 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541131,501,191 - 31,646,407 (-)NCBIChiLan1.0ChiLan1.0
ATG5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25126,183,703 - 126,346,578 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16124,071,501 - 124,233,849 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06103,997,824 - 104,140,931 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16107,871,201 - 108,027,064 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6107,871,208 - 108,013,807 (-)Ensemblpanpan1.1panPan2
ATG5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11263,565,859 - 63,692,383 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1263,567,568 - 63,683,485 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1263,353,188 - 63,480,151 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01264,411,072 - 64,538,081 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1264,410,753 - 64,538,102 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11263,770,621 - 63,897,766 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01263,612,694 - 63,739,640 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01263,886,649 - 64,013,653 (-)NCBIUU_Cfam_GSD_1.0
Atg5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494698,484,245 - 98,610,566 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365642,758,598 - 2,885,420 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365642,759,085 - 2,885,394 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATG5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl172,270,799 - 72,520,396 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1172,343,950 - 72,520,402 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Atg5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478015,987,397 - 16,124,151 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478015,987,483 - 16,124,158 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression

ectoderm
endocrine system
hemolymphoid system
mesenchyme
mesoderm
nervous system
reproductive system
76 36 20 36 36 60 20

Sequence


Ensembl Acc Id: ENSCSAT00000012847   ⟹   ENSCSAP00000010869
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl1367,482,595 - 67,617,902 (+)Ensembl
RefSeq Acc Id: XM_008007459   ⟹   XP_008005650
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11367,482,538 - 67,619,201 (+)NCBI
Vero_WHO_p1.0NW_02366604039,817,584 - 39,954,576 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008007460   ⟹   XP_008005651
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11367,482,538 - 67,619,201 (+)NCBI
Vero_WHO_p1.0NW_02366604039,817,584 - 39,954,576 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008007461   ⟹   XP_008005652
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11367,482,822 - 67,601,204 (+)NCBI
Vero_WHO_p1.0NW_02366604039,817,584 - 39,935,875 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038001068   ⟹   XP_037856996
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366604039,817,598 - 39,954,576 (+)NCBI
Protein Sequences
Protein RefSeqs XP_008005650 (Get FASTA)   NCBI Sequence Viewer  
  XP_008005651 (Get FASTA)   NCBI Sequence Viewer  
  XP_008005652 (Get FASTA)   NCBI Sequence Viewer  
  XP_037856996 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000010869
  ENSCSAP00000010869.1
RefSeq Acc Id: XP_008005650   ⟸   XM_008007459
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RQI0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_008005651   ⟸   XM_008007460
- Peptide Label: isoform X2
RefSeq Acc Id: XP_008005652   ⟸   XM_008007461
- Peptide Label: isoform X3
Ensembl Acc Id: ENSCSAP00000010869   ⟸   ENSCSAT00000012847
RefSeq Acc Id: XP_037856996   ⟸   XM_038001068
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RQI0 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000014751 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000012847.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.246.190 UniProtKB/TrEMBL
  3.10.20.620 UniProtKB/TrEMBL
InterPro Atg5 UniProtKB/TrEMBL
  ATG5_HBR UniProtKB/TrEMBL
  Atg5_HR UniProtKB/TrEMBL
  ATG5_UblA UniProtKB/TrEMBL
  Atg5_UblA_dom UniProtKB/TrEMBL
  ATG5_UblB UniProtKB/TrEMBL
KEGG Report csab:103240649 UniProtKB/TrEMBL
NCBI Gene ATG5 ENTREZGENE
PANTHER AUTOPHAGY PROTEIN 5 UniProtKB/TrEMBL
  PTHR13040 UniProtKB/TrEMBL
Pfam APG5 UniProtKB/TrEMBL
  ATG5_HBR UniProtKB/TrEMBL
  ATG5_UblA UniProtKB/TrEMBL
UniProt A0A0D9RQI0 ENTREZGENE, UniProtKB/TrEMBL