Atg4a (autophagy related 4A cysteine peptidase) - Rat Genome Database

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Gene: Atg4a (autophagy related 4A cysteine peptidase) Heterocephalus glaber
Analyze
Symbol: Atg4a
Name: autophagy related 4A cysteine peptidase
RGD ID: 18929727
Description: ENCODES a protein that exhibits cysteine-type peptidase activity (inferred); peptidase activity (inferred); protein-phosphatidylethanolamide deconjugating activity (inferred); INVOLVED IN autophagosome assembly (ortholog); PARTICIPATES IN autophagy pathway; ASSOCIATED WITH autistic disorder (ortholog); Charcot-Marie-Tooth disease type X (ortholog); genetic disease (ortholog); FOUND IN cytoplasm (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: cysteine protease ATG4A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248038,337,042 - 8,407,222 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248038,336,123 - 8,407,354 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
Atg4a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248038,337,042 - 8,407,222 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248038,336,123 - 8,407,354 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
ATG4A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X108,088,829 - 108,154,671 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX108,091,668 - 108,154,671 (+)EnsemblGRCh38hg38GRCh38
GRCh37X107,335,008 - 107,397,901 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X107,221,590 - 107,284,552 (+)NCBINCBI36Build 36hg18NCBI36
CeleraX107,806,406 - 107,869,363 (+)NCBICelera
Cytogenetic MapXq22.3NCBI
HuRefX96,957,585 - 97,020,331 (+)NCBIHuRef
CHM1_1X107,245,775 - 107,308,734 (+)NCBICHM1_1
T2T-CHM13v2.0X106,526,530 - 106,592,262 (+)NCBIT2T-CHM13v2.0
Atg4a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X139,854,594 - 139,947,190 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX139,857,656 - 139,947,266 (+)EnsemblGRCm39 Ensembl
GRCm38X140,953,845 - 141,164,194 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX140,956,907 - 141,164,270 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X137,593,241 - 137,598,813 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv37X137,491,456 - 137,529,979 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X136,303,271 - 136,342,019 (+)NCBIMGSCv36mm8
CeleraX124,212,154 - 124,250,668 (+)NCBICelera
CeleraX125,167,353 - 125,172,805 (+)NCBICelera
Cytogenetic MapXF1NCBI
cM MapX61.67NCBI
Atg4a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X109,453,712 - 109,553,758 (+)NCBIGRCr8
mRatBN7.2X104,665,345 - 104,765,271 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX104,665,345 - 104,765,268 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX106,794,654 - 106,894,585 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X110,294,013 - 110,393,796 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X107,848,029 - 107,952,306 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X112,328,907 - 112,403,157 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0352,231,912 - 52,273,743 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX104,178,429 - 104,184,592 (+)NCBICelera
Cytogenetic MapXq33NCBI
Atg4a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554907,762,623 - 7,788,705 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554907,765,145 - 7,825,126 (-)NCBIChiLan1.0ChiLan1.0
ATG4A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X107,572,779 - 107,636,591 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X107,576,410 - 107,640,195 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X97,189,556 - 97,253,371 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X107,559,639 - 107,623,389 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX107,559,639 - 107,623,389 (+)Ensemblpanpan1.1panPan2
ATG4A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X81,629,346 - 81,688,086 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX81,629,465 - 81,688,099 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX67,753,046 - 67,808,661 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X83,281,769 - 83,337,418 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX83,279,008 - 83,337,403 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X80,740,818 - 80,796,428 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X82,453,368 - 82,509,012 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X82,244,510 - 82,299,838 (+)NCBIUU_Cfam_GSD_1.0
Atg4a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X80,966,279 - 81,016,771 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364996,640,957 - 6,691,995 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364996,641,192 - 6,691,685 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATG4A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX88,548,751 - 88,633,321 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X88,545,924 - 88,633,328 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X103,050,536 - 103,071,241 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ATG4A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X95,936,385 - 96,011,541 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX95,983,662 - 96,010,578 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606521,037,553 - 21,109,912 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSHGLT00000003946   ⟹   ENSHGLP00000003888
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046248038,337,042 - 8,407,222 (-)Ensembl
RefSeq Acc Id: XM_004861451   ⟹   XP_004861508
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248038,336,123 - 8,407,354 (-)NCBI
RefSeq Acc Id: XM_021241636   ⟹   XP_021097295
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248038,336,123 - 8,407,159 (-)NCBI
Protein Sequences
Protein RefSeqs XP_004861508 (Get FASTA)   NCBI Sequence Viewer  
  XP_021097295 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000003888
  ENSHGLP00100005702
GenBank Protein JAO00239 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_004861508   ⟸   XM_004861451
- Peptide Label: isoform X1
- UniProtKB: A0A0P6JH78 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021097295   ⟸   XM_021241636
- Peptide Label: isoform X2
RefSeq Acc Id: ENSHGLP00000003888   ⟸   ENSHGLT00000003946


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000002867 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSHGLG00100004321 UniProtKB/TrEMBL
Ensembl Transcript ENSHGLT00000003946 ENTREZGENE, UniProtKB/TrEMBL
  ENSHGLT00100005785 UniProtKB/TrEMBL
InterPro ATG4_LIR UniProtKB/TrEMBL
  Papain-like_cys_pep_sf UniProtKB/TrEMBL
  Peptidase_C54 UniProtKB/TrEMBL
  Peptidase_C54_cat UniProtKB/TrEMBL
NCBI Gene Atg4a ENTREZGENE
PANTHER PTHR22624 UniProtKB/TrEMBL
  PTHR22624:SF35 UniProtKB/TrEMBL
Pfam ATG4_LIR UniProtKB/TrEMBL
  Peptidase_C54 UniProtKB/TrEMBL
Superfamily-SCOP SSF54001 UniProtKB/TrEMBL
UniProt A0A0P6JH78 ENTREZGENE, UniProtKB/TrEMBL